allelematch_6-amUnique.md
In amregtest: Runs Allelematch Regression Tests

Loop the Loop

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0, doPsib="missing", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","UNIQUE","AAA","AAA","1","0","1","1e-05","0.106226084183673","","11","21","31","41"
  "2","UNIQUE","AAB","AAB","1","0","1","1e-05","0.106226084183673","","12","22","32","42"
  "3","UNIQUE","AAC","AAC","1","0","1","1e-05","0.106226084183673","","13","23","33","43"
  "4","UNIQUE","AAD","AAD","1","0","1","1e-05","0.3203125","","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","UNIQUE","AAA","AAA","1","0","1","1e-05","0.106226084183673","","11","21","31","41"
  "2","UNIQUE","AAB","AAB","1","0","1","1e-05","0.106226084183673","","12","22","32","42"
  "3","UNIQUE","AAC","AAC","1","0","1","1e-05","0.106226084183673","","13","23","33","43"
  "4","UNIQUE","AAD","AAD","1","0","1","1e-05","0.3203125","","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","UNIQUE","AAA","AAA","1","0","1","1e-05","0.106226084183673","","11","21","31","41"
  "2","UNIQUE","AAB","AAB","1","0","1","1e-05","0.106226084183673","","12","22","32","42"
  "3","UNIQUE","AAC","AAC","1","0","1","1e-05","0.106226084183673","","13","23","33","43"
  "4","UNIQUE","AAD","AAD","1","0","1","1e-05","0.3203125","","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","UNIQUE","AAA","AAA","1","0","1","1e-05","0.106226084183673","","11","21","31","41"
  "2","UNIQUE","AAB","AAB","1","0","1","1e-05","0.106226084183673","","12","22","32","42"
  "3","UNIQUE","AAC","AAC","1","0","1","1e-05","0.106226084183673","","13","23","33","43"
  "4","UNIQUE","AAD","AAD","1","0","1","1e-05","0.3203125","","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0, doPsib="all", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","UNIQUE","AAA","AAA","1","0","1","1e-05","0.106226084183673","","11","21","31","41"
  "2","UNIQUE","AAB","AAB","1","0","1","1e-05","0.106226084183673","","12","22","32","42"
  "3","UNIQUE","AAC","AAC","1","0","1","1e-05","0.106226084183673","","13","23","33","43"
  "4","UNIQUE","AAD","AAD","1","0","1","1e-05","0.3203125","","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","UNIQUE","AAA","AAA","1","0","1","1e-05","0.106226084183673","","11","21","31","41"
  "2","UNIQUE","AAB","AAB","1","0","1","1e-05","0.106226084183673","","12","22","32","42"
  "3","UNIQUE","AAC","AAC","1","0","1","1e-05","0.106226084183673","","13","23","33","43"
  "4","UNIQUE","AAD","AAD","1","0","1","1e-05","0.3203125","","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","UNIQUE","AAA","AAA","1","0","1","1e-05","0.106226084183673","","11","21","31","41"
  "2","UNIQUE","AAB","AAB","1","0","1","1e-05","0.106226084183673","","12","22","32","42"
  "3","UNIQUE","AAC","AAC","1","0","1","1e-05","0.106226084183673","","13","23","33","43"
  "4","UNIQUE","AAD","AAD","1","0","1","1e-05","0.3203125","","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","UNIQUE","AAA","AAA","1","0","1","1e-05","0.106226084183673","","11","21","31","41"
  "2","UNIQUE","AAB","AAB","1","0","1","1e-05","0.106226084183673","","12","22","32","42"
  "3","UNIQUE","AAC","AAC","1","0","1","1e-05","0.106226084183673","","13","23","33","43"
  "4","UNIQUE","AAD","AAD","1","0","1","1e-05","0.3203125","","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.3, doPsib="missing", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","UNIQUE","AAA","AAA","1","1.2","0.7","0.3","0.106226084183673","","11","21","31","41"
  "2","UNIQUE","AAB","AAB","1","1.2","0.7","0.3","0.106226084183673","","12","22","32","42"
  "3","UNIQUE","AAC","AAC","1","1.2","0.7","0.3","0.106226084183673","","13","23","33","43"
  "4","UNIQUE","AAD","AAD","1","1.2","0.7","0.3","0.3203125","","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.3, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","UNIQUE","AAA","AAA","1","1.2","0.7","0.3","0.106226084183673","","11","21","31","41"
  "2","UNIQUE","AAB","AAB","1","1.2","0.7","0.3","0.106226084183673","","12","22","32","42"
  "3","UNIQUE","AAC","AAC","1","1.2","0.7","0.3","0.106226084183673","","13","23","33","43"
  "4","UNIQUE","AAD","AAD","1","1.2","0.7","0.3","0.3203125","","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.3, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","UNIQUE","AAA","AAA","1","1.2","0.7","0.3","0.106226084183673","","11","21","31","41"
  "2","UNIQUE","AAB","AAB","1","1.2","0.7","0.3","0.106226084183673","","12","22","32","42"
  "3","UNIQUE","AAC","AAC","1","1.2","0.7","0.3","0.106226084183673","","13","23","33","43"
  "4","UNIQUE","AAD","AAD","1","1.2","0.7","0.3","0.3203125","","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.3, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","UNIQUE","AAA","AAA","1","1.2","0.7","0.3","0.106226084183673","","11","21","31","41"
  "2","UNIQUE","AAB","AAB","1","1.2","0.7","0.3","0.106226084183673","","12","22","32","42"
  "3","UNIQUE","AAC","AAC","1","1.2","0.7","0.3","0.106226084183673","","13","23","33","43"
  "4","UNIQUE","AAD","AAD","1","1.2","0.7","0.3","0.3203125","","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.3, doPsib="all", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","UNIQUE","AAA","AAA","1","1.2","0.7","0.3","0.106226084183673","","11","21","31","41"
  "2","UNIQUE","AAB","AAB","1","1.2","0.7","0.3","0.106226084183673","","12","22","32","42"
  "3","UNIQUE","AAC","AAC","1","1.2","0.7","0.3","0.106226084183673","","13","23","33","43"
  "4","UNIQUE","AAD","AAD","1","1.2","0.7","0.3","0.3203125","","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.3, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","UNIQUE","AAA","AAA","1","1.2","0.7","0.3","0.106226084183673","","11","21","31","41"
  "2","UNIQUE","AAB","AAB","1","1.2","0.7","0.3","0.106226084183673","","12","22","32","42"
  "3","UNIQUE","AAC","AAC","1","1.2","0.7","0.3","0.106226084183673","","13","23","33","43"
  "4","UNIQUE","AAD","AAD","1","1.2","0.7","0.3","0.3203125","","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.3, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","UNIQUE","AAA","AAA","1","1.2","0.7","0.3","0.106226084183673","","11","21","31","41"
  "2","UNIQUE","AAB","AAB","1","1.2","0.7","0.3","0.106226084183673","","12","22","32","42"
  "3","UNIQUE","AAC","AAC","1","1.2","0.7","0.3","0.106226084183673","","13","23","33","43"
  "4","UNIQUE","AAD","AAD","1","1.2","0.7","0.3","0.3203125","","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.3, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","UNIQUE","AAA","AAA","1","1.2","0.7","0.3","0.106226084183673","","11","21","31","41"
  "2","UNIQUE","AAB","AAB","1","1.2","0.7","0.3","0.106226084183673","","12","22","32","42"
  "3","UNIQUE","AAC","AAC","1","1.2","0.7","0.3","0.106226084183673","","13","23","33","43"
  "4","UNIQUE","AAD","AAD","1","1.2","0.7","0.3","0.3203125","","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.5, doPsib="missing", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","UNIQUE","AAA","AAA","1","2","0.5","0.5","0.106226084183673","","11","21","31","41"
  "2","UNIQUE","AAB","AAB","1","2","0.5","0.5","0.106226084183673","","12","22","32","42"
  "3","UNIQUE","AAC","AAC","1","2","0.5","0.5","0.106226084183673","","13","23","33","43"
  "4","UNIQUE","AAD","AAD","1","2","0.5","0.5","0.3203125","","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.5, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","UNIQUE","AAA","AAA","1","2","0.5","0.5","0.106226084183673","","11","21","31","41"
  "2","UNIQUE","AAB","AAB","1","2","0.5","0.5","0.106226084183673","","12","22","32","42"
  "3","UNIQUE","AAC","AAC","1","2","0.5","0.5","0.106226084183673","","13","23","33","43"
  "4","UNIQUE","AAD","AAD","1","2","0.5","0.5","0.3203125","","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.5, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","UNIQUE","AAA","AAA","1","2","0.5","0.5","0.106226084183673","","11","21","31","41"
  "2","UNIQUE","AAB","AAB","1","2","0.5","0.5","0.106226084183673","","12","22","32","42"
  "3","UNIQUE","AAC","AAC","1","2","0.5","0.5","0.106226084183673","","13","23","33","43"
  "4","UNIQUE","AAD","AAD","1","2","0.5","0.5","0.3203125","","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.5, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","UNIQUE","AAA","AAA","1","2","0.5","0.5","0.106226084183673","","11","21","31","41"
  "2","UNIQUE","AAB","AAB","1","2","0.5","0.5","0.106226084183673","","12","22","32","42"
  "3","UNIQUE","AAC","AAC","1","2","0.5","0.5","0.106226084183673","","13","23","33","43"
  "4","UNIQUE","AAD","AAD","1","2","0.5","0.5","0.3203125","","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.5, doPsib="all", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","UNIQUE","AAA","AAA","1","2","0.5","0.5","0.106226084183673","","11","21","31","41"
  "2","UNIQUE","AAB","AAB","1","2","0.5","0.5","0.106226084183673","","12","22","32","42"
  "3","UNIQUE","AAC","AAC","1","2","0.5","0.5","0.106226084183673","","13","23","33","43"
  "4","UNIQUE","AAD","AAD","1","2","0.5","0.5","0.3203125","","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.5, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","UNIQUE","AAA","AAA","1","2","0.5","0.5","0.106226084183673","","11","21","31","41"
  "2","UNIQUE","AAB","AAB","1","2","0.5","0.5","0.106226084183673","","12","22","32","42"
  "3","UNIQUE","AAC","AAC","1","2","0.5","0.5","0.106226084183673","","13","23","33","43"
  "4","UNIQUE","AAD","AAD","1","2","0.5","0.5","0.3203125","","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.5, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","UNIQUE","AAA","AAA","1","2","0.5","0.5","0.106226084183673","","11","21","31","41"
  "2","UNIQUE","AAB","AAB","1","2","0.5","0.5","0.106226084183673","","12","22","32","42"
  "3","UNIQUE","AAC","AAC","1","2","0.5","0.5","0.106226084183673","","13","23","33","43"
  "4","UNIQUE","AAD","AAD","1","2","0.5","0.5","0.3203125","","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.5, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","UNIQUE","AAA","AAA","1","2","0.5","0.5","0.106226084183673","","11","21","31","41"
  "2","UNIQUE","AAB","AAB","1","2","0.5","0.5","0.106226084183673","","12","22","32","42"
  "3","UNIQUE","AAC","AAC","1","2","0.5","0.5","0.106226084183673","","13","23","33","43"
  "4","UNIQUE","AAD","AAD","1","2","0.5","0.5","0.3203125","","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.7, doPsib="missing", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","UNIQUE","AAA","AAA","1","2.8","0.3","0.7","0.106226084183673","","11","21","31","41"
  "2","UNIQUE","AAB","AAB","1","2.8","0.3","0.7","0.106226084183673","","12","22","32","42"
  "3","UNIQUE","AAC","AAC","1","2.8","0.3","0.7","0.106226084183673","","13","23","33","43"
  "4","UNIQUE","AAD","AAD","1","2.8","0.3","0.7","0.3203125","","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.7, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","UNIQUE","AAA","AAA","1","2.8","0.3","0.7","0.106226084183673","","11","21","31","41"
  "2","UNIQUE","AAB","AAB","1","2.8","0.3","0.7","0.106226084183673","","12","22","32","42"
  "3","UNIQUE","AAC","AAC","1","2.8","0.3","0.7","0.106226084183673","","13","23","33","43"
  "4","UNIQUE","AAD","AAD","1","2.8","0.3","0.7","0.3203125","","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.7, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","UNIQUE","AAA","AAA","1","2.8","0.3","0.7","0.106226084183673","","11","21","31","41"
  "2","UNIQUE","AAB","AAB","1","2.8","0.3","0.7","0.106226084183673","","12","22","32","42"
  "3","UNIQUE","AAC","AAC","1","2.8","0.3","0.7","0.106226084183673","","13","23","33","43"
  "4","UNIQUE","AAD","AAD","1","2.8","0.3","0.7","0.3203125","","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.7, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","UNIQUE","AAA","AAA","1","2.8","0.3","0.7","0.106226084183673","","11","21","31","41"
  "2","UNIQUE","AAB","AAB","1","2.8","0.3","0.7","0.106226084183673","","12","22","32","42"
  "3","UNIQUE","AAC","AAC","1","2.8","0.3","0.7","0.106226084183673","","13","23","33","43"
  "4","UNIQUE","AAD","AAD","1","2.8","0.3","0.7","0.3203125","","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.7, doPsib="all", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","UNIQUE","AAA","AAA","1","2.8","0.3","0.7","0.106226084183673","","11","21","31","41"
  "2","UNIQUE","AAB","AAB","1","2.8","0.3","0.7","0.106226084183673","","12","22","32","42"
  "3","UNIQUE","AAC","AAC","1","2.8","0.3","0.7","0.106226084183673","","13","23","33","43"
  "4","UNIQUE","AAD","AAD","1","2.8","0.3","0.7","0.3203125","","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.7, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","UNIQUE","AAA","AAA","1","2.8","0.3","0.7","0.106226084183673","","11","21","31","41"
  "2","UNIQUE","AAB","AAB","1","2.8","0.3","0.7","0.106226084183673","","12","22","32","42"
  "3","UNIQUE","AAC","AAC","1","2.8","0.3","0.7","0.106226084183673","","13","23","33","43"
  "4","UNIQUE","AAD","AAD","1","2.8","0.3","0.7","0.3203125","","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.7, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","UNIQUE","AAA","AAA","1","2.8","0.3","0.7","0.106226084183673","","11","21","31","41"
  "2","UNIQUE","AAB","AAB","1","2.8","0.3","0.7","0.106226084183673","","12","22","32","42"
  "3","UNIQUE","AAC","AAC","1","2.8","0.3","0.7","0.106226084183673","","13","23","33","43"
  "4","UNIQUE","AAD","AAD","1","2.8","0.3","0.7","0.3203125","","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.7, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","UNIQUE","AAA","AAA","1","2.8","0.3","0.7","0.106226084183673","","11","21","31","41"
  "2","UNIQUE","AAB","AAB","1","2.8","0.3","0.7","0.106226084183673","","12","22","32","42"
  "3","UNIQUE","AAC","AAC","1","2.8","0.3","0.7","0.106226084183673","","13","23","33","43"
  "4","UNIQUE","AAD","AAD","1","2.8","0.3","0.7","0.3203125","","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.9, doPsib="missing", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","CHECK_UNIQUE","AAA","AAA","2","3.6","0.1","0.9","0.120563271604938","","11","21","31","41"
  "1","MULTIPLE_MATCH","AAA","AAD","2","3.6","0.1","0.9","","0.12","14","24","-99","44"
  "2","CHECK_UNIQUE","AAB","AAB","2","3.6","0.1","0.9","0.120563271604938","","12","22","32","42"
  "2","MULTIPLE_MATCH","AAB","AAD","2","3.6","0.1","0.9","","0.12","14","24","-99","44"
  "3","CHECK_UNIQUE","AAC","AAC","2","3.6","0.1","0.9","0.120563271604938","","13","23","33","43"
  "3","MULTIPLE_MATCH","AAC","AAD","2","3.6","0.1","0.9","","0.12","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.9, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","CHECK_UNIQUE","AAA","AAA","2","3.6","0.1","0.9","0.120563271604938","","11","21","31","41"
  "1","MULTIPLE_MATCH","AAA","AAD","2","3.6","0.1","0.9","","0.12","14","24","-99","44"
  "2","CHECK_UNIQUE","AAB","AAB","2","3.6","0.1","0.9","0.120563271604938","","12","22","32","42"
  "2","MULTIPLE_MATCH","AAB","AAD","2","3.6","0.1","0.9","","0.12","14","24","-99","44"
  "3","CHECK_UNIQUE","AAC","AAC","2","3.6","0.1","0.9","0.120563271604938","","13","23","33","43"
  "3","MULTIPLE_MATCH","AAC","AAD","2","3.6","0.1","0.9","","0.12","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.9, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","CHECK_UNIQUE","AAA","AAA","2","3.6","0.1","0.9","0.120563271604938","","11","21","31","41"
  "1","MULTIPLE_MATCH","AAA","AAD","2","3.6","0.1","0.9","","0.12","14","24","-99","44"
  "2","CHECK_UNIQUE","AAB","AAB","2","3.6","0.1","0.9","0.120563271604938","","12","22","32","42"
  "2","MULTIPLE_MATCH","AAB","AAD","2","3.6","0.1","0.9","","0.12","14","24","-99","44"
  "3","CHECK_UNIQUE","AAC","AAC","2","3.6","0.1","0.9","0.120563271604938","","13","23","33","43"
  "3","MULTIPLE_MATCH","AAC","AAD","2","3.6","0.1","0.9","","0.12","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.9, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","CHECK_UNIQUE","AAA","AAA","2","3.6","0.1","0.9","0.120563271604938","","11","21","31","41"
  "1","MULTIPLE_MATCH","AAA","AAD","2","3.6","0.1","0.9","","0.12","14","24","-99","44"
  "2","CHECK_UNIQUE","AAB","AAB","2","3.6","0.1","0.9","0.120563271604938","","12","22","32","42"
  "2","MULTIPLE_MATCH","AAB","AAD","2","3.6","0.1","0.9","","0.12","14","24","-99","44"
  "3","CHECK_UNIQUE","AAC","AAC","2","3.6","0.1","0.9","0.120563271604938","","13","23","33","43"
  "3","MULTIPLE_MATCH","AAC","AAD","2","3.6","0.1","0.9","","0.12","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.9, doPsib="all", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","CHECK_UNIQUE","AAA","AAA","2","3.6","0.1","0.9","0.120563271604938","","11","21","31","41"
  "1","MULTIPLE_MATCH","AAA","AAD","2","3.6","0.1","0.9","1","0.12","14","24","-99","44"
  "2","CHECK_UNIQUE","AAB","AAB","2","3.6","0.1","0.9","0.120563271604938","","12","22","32","42"
  "2","MULTIPLE_MATCH","AAB","AAD","2","3.6","0.1","0.9","1","0.12","14","24","-99","44"
  "3","CHECK_UNIQUE","AAC","AAC","2","3.6","0.1","0.9","0.120563271604938","","13","23","33","43"
  "3","MULTIPLE_MATCH","AAC","AAD","2","3.6","0.1","0.9","1","0.12","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.9, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","CHECK_UNIQUE","AAA","AAA","2","3.6","0.1","0.9","0.120563271604938","","11","21","31","41"
  "1","MULTIPLE_MATCH","AAA","AAD","2","3.6","0.1","0.9","1","0.12","14","24","-99","44"
  "2","CHECK_UNIQUE","AAB","AAB","2","3.6","0.1","0.9","0.120563271604938","","12","22","32","42"
  "2","MULTIPLE_MATCH","AAB","AAD","2","3.6","0.1","0.9","1","0.12","14","24","-99","44"
  "3","CHECK_UNIQUE","AAC","AAC","2","3.6","0.1","0.9","0.120563271604938","","13","23","33","43"
  "3","MULTIPLE_MATCH","AAC","AAD","2","3.6","0.1","0.9","1","0.12","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.9, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","CHECK_UNIQUE","AAA","AAA","2","3.6","0.1","0.9","0.120563271604938","","11","21","31","41"
  "1","MULTIPLE_MATCH","AAA","AAD","2","3.6","0.1","0.9","1","0.12","14","24","-99","44"
  "2","CHECK_UNIQUE","AAB","AAB","2","3.6","0.1","0.9","0.120563271604938","","12","22","32","42"
  "2","MULTIPLE_MATCH","AAB","AAD","2","3.6","0.1","0.9","1","0.12","14","24","-99","44"
  "3","CHECK_UNIQUE","AAC","AAC","2","3.6","0.1","0.9","0.120563271604938","","13","23","33","43"
  "3","MULTIPLE_MATCH","AAC","AAD","2","3.6","0.1","0.9","1","0.12","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.9, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","CHECK_UNIQUE","AAA","AAA","2","3.6","0.1","0.9","0.120563271604938","","11","21","31","41"
  "1","MULTIPLE_MATCH","AAA","AAD","2","3.6","0.1","0.9","1","0.12","14","24","-99","44"
  "2","CHECK_UNIQUE","AAB","AAB","2","3.6","0.1","0.9","0.120563271604938","","12","22","32","42"
  "2","MULTIPLE_MATCH","AAB","AAD","2","3.6","0.1","0.9","1","0.12","14","24","-99","44"
  "3","CHECK_UNIQUE","AAC","AAC","2","3.6","0.1","0.9","0.120563271604938","","13","23","33","43"
  "3","MULTIPLE_MATCH","AAC","AAD","2","3.6","0.1","0.9","1","0.12","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.95, doPsib="missing", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","CHECK_UNIQUE","AAA","AAA","2","3.8","0.05","0.95","0.120563271604938","","11","21","31","41"
  "1","MULTIPLE_MATCH","AAA","AAD","2","3.8","0.05","0.95","","0.12","14","24","-99","44"
  "2","CHECK_UNIQUE","AAB","AAB","2","3.8","0.05","0.95","0.120563271604938","","12","22","32","42"
  "2","MULTIPLE_MATCH","AAB","AAD","2","3.8","0.05","0.95","","0.12","14","24","-99","44"
  "3","CHECK_UNIQUE","AAC","AAC","2","3.8","0.05","0.95","0.120563271604938","","13","23","33","43"
  "3","MULTIPLE_MATCH","AAC","AAD","2","3.8","0.05","0.95","","0.12","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.95, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","CHECK_UNIQUE","AAA","AAA","2","3.8","0.05","0.95","0.120563271604938","","11","21","31","41"
  "1","MULTIPLE_MATCH","AAA","AAD","2","3.8","0.05","0.95","","0.12","14","24","-99","44"
  "2","CHECK_UNIQUE","AAB","AAB","2","3.8","0.05","0.95","0.120563271604938","","12","22","32","42"
  "2","MULTIPLE_MATCH","AAB","AAD","2","3.8","0.05","0.95","","0.12","14","24","-99","44"
  "3","CHECK_UNIQUE","AAC","AAC","2","3.8","0.05","0.95","0.120563271604938","","13","23","33","43"
  "3","MULTIPLE_MATCH","AAC","AAD","2","3.8","0.05","0.95","","0.12","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.95, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","CHECK_UNIQUE","AAA","AAA","2","3.8","0.05","0.95","0.120563271604938","","11","21","31","41"
  "1","MULTIPLE_MATCH","AAA","AAD","2","3.8","0.05","0.95","","0.12","14","24","-99","44"
  "2","CHECK_UNIQUE","AAB","AAB","2","3.8","0.05","0.95","0.120563271604938","","12","22","32","42"
  "2","MULTIPLE_MATCH","AAB","AAD","2","3.8","0.05","0.95","","0.12","14","24","-99","44"
  "3","CHECK_UNIQUE","AAC","AAC","2","3.8","0.05","0.95","0.120563271604938","","13","23","33","43"
  "3","MULTIPLE_MATCH","AAC","AAD","2","3.8","0.05","0.95","","0.12","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.95, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","CHECK_UNIQUE","AAA","AAA","2","3.8","0.05","0.95","0.120563271604938","","11","21","31","41"
  "1","MULTIPLE_MATCH","AAA","AAD","2","3.8","0.05","0.95","","0.12","14","24","-99","44"
  "2","CHECK_UNIQUE","AAB","AAB","2","3.8","0.05","0.95","0.120563271604938","","12","22","32","42"
  "2","MULTIPLE_MATCH","AAB","AAD","2","3.8","0.05","0.95","","0.12","14","24","-99","44"
  "3","CHECK_UNIQUE","AAC","AAC","2","3.8","0.05","0.95","0.120563271604938","","13","23","33","43"
  "3","MULTIPLE_MATCH","AAC","AAD","2","3.8","0.05","0.95","","0.12","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.95, doPsib="all", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","CHECK_UNIQUE","AAA","AAA","2","3.8","0.05","0.95","0.120563271604938","","11","21","31","41"
  "1","MULTIPLE_MATCH","AAA","AAD","2","3.8","0.05","0.95","1","0.12","14","24","-99","44"
  "2","CHECK_UNIQUE","AAB","AAB","2","3.8","0.05","0.95","0.120563271604938","","12","22","32","42"
  "2","MULTIPLE_MATCH","AAB","AAD","2","3.8","0.05","0.95","1","0.12","14","24","-99","44"
  "3","CHECK_UNIQUE","AAC","AAC","2","3.8","0.05","0.95","0.120563271604938","","13","23","33","43"
  "3","MULTIPLE_MATCH","AAC","AAD","2","3.8","0.05","0.95","1","0.12","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.95, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","CHECK_UNIQUE","AAA","AAA","2","3.8","0.05","0.95","0.120563271604938","","11","21","31","41"
  "1","MULTIPLE_MATCH","AAA","AAD","2","3.8","0.05","0.95","1","0.12","14","24","-99","44"
  "2","CHECK_UNIQUE","AAB","AAB","2","3.8","0.05","0.95","0.120563271604938","","12","22","32","42"
  "2","MULTIPLE_MATCH","AAB","AAD","2","3.8","0.05","0.95","1","0.12","14","24","-99","44"
  "3","CHECK_UNIQUE","AAC","AAC","2","3.8","0.05","0.95","0.120563271604938","","13","23","33","43"
  "3","MULTIPLE_MATCH","AAC","AAD","2","3.8","0.05","0.95","1","0.12","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.95, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","CHECK_UNIQUE","AAA","AAA","2","3.8","0.05","0.95","0.120563271604938","","11","21","31","41"
  "1","MULTIPLE_MATCH","AAA","AAD","2","3.8","0.05","0.95","1","0.12","14","24","-99","44"
  "2","CHECK_UNIQUE","AAB","AAB","2","3.8","0.05","0.95","0.120563271604938","","12","22","32","42"
  "2","MULTIPLE_MATCH","AAB","AAD","2","3.8","0.05","0.95","1","0.12","14","24","-99","44"
  "3","CHECK_UNIQUE","AAC","AAC","2","3.8","0.05","0.95","0.120563271604938","","13","23","33","43"
  "3","MULTIPLE_MATCH","AAC","AAD","2","3.8","0.05","0.95","1","0.12","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.95, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","CHECK_UNIQUE","AAA","AAA","2","3.8","0.05","0.95","0.120563271604938","","11","21","31","41"
  "1","MULTIPLE_MATCH","AAA","AAD","2","3.8","0.05","0.95","1","0.12","14","24","-99","44"
  "2","CHECK_UNIQUE","AAB","AAB","2","3.8","0.05","0.95","0.120563271604938","","12","22","32","42"
  "2","MULTIPLE_MATCH","AAB","AAD","2","3.8","0.05","0.95","1","0.12","14","24","-99","44"
  "3","CHECK_UNIQUE","AAC","AAC","2","3.8","0.05","0.95","0.120563271604938","","13","23","33","43"
  "3","MULTIPLE_MATCH","AAC","AAD","2","3.8","0.05","0.95","1","0.12","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.99, doPsib="missing", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","CHECK_UNIQUE","AAA","AAA","2","3.96","0.01","0.99","0.120563271604938","","11","21","31","41"
  "1","MULTIPLE_MATCH","AAA","AAD","2","3.96","0.01","0.99","","0.12","14","24","-99","44"
  "2","CHECK_UNIQUE","AAB","AAB","2","3.96","0.01","0.99","0.120563271604938","","12","22","32","42"
  "2","MULTIPLE_MATCH","AAB","AAD","2","3.96","0.01","0.99","","0.12","14","24","-99","44"
  "3","CHECK_UNIQUE","AAC","AAC","2","3.96","0.01","0.99","0.120563271604938","","13","23","33","43"
  "3","MULTIPLE_MATCH","AAC","AAD","2","3.96","0.01","0.99","","0.12","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.99, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","CHECK_UNIQUE","AAA","AAA","2","3.96","0.01","0.99","0.120563271604938","","11","21","31","41"
  "1","MULTIPLE_MATCH","AAA","AAD","2","3.96","0.01","0.99","","0.12","14","24","-99","44"
  "2","CHECK_UNIQUE","AAB","AAB","2","3.96","0.01","0.99","0.120563271604938","","12","22","32","42"
  "2","MULTIPLE_MATCH","AAB","AAD","2","3.96","0.01","0.99","","0.12","14","24","-99","44"
  "3","CHECK_UNIQUE","AAC","AAC","2","3.96","0.01","0.99","0.120563271604938","","13","23","33","43"
  "3","MULTIPLE_MATCH","AAC","AAD","2","3.96","0.01","0.99","","0.12","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.99, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","CHECK_UNIQUE","AAA","AAA","2","3.96","0.01","0.99","0.120563271604938","","11","21","31","41"
  "1","MULTIPLE_MATCH","AAA","AAD","2","3.96","0.01","0.99","","0.12","14","24","-99","44"
  "2","CHECK_UNIQUE","AAB","AAB","2","3.96","0.01","0.99","0.120563271604938","","12","22","32","42"
  "2","MULTIPLE_MATCH","AAB","AAD","2","3.96","0.01","0.99","","0.12","14","24","-99","44"
  "3","CHECK_UNIQUE","AAC","AAC","2","3.96","0.01","0.99","0.120563271604938","","13","23","33","43"
  "3","MULTIPLE_MATCH","AAC","AAD","2","3.96","0.01","0.99","","0.12","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.99, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","CHECK_UNIQUE","AAA","AAA","2","3.96","0.01","0.99","0.120563271604938","","11","21","31","41"
  "1","MULTIPLE_MATCH","AAA","AAD","2","3.96","0.01","0.99","","0.12","14","24","-99","44"
  "2","CHECK_UNIQUE","AAB","AAB","2","3.96","0.01","0.99","0.120563271604938","","12","22","32","42"
  "2","MULTIPLE_MATCH","AAB","AAD","2","3.96","0.01","0.99","","0.12","14","24","-99","44"
  "3","CHECK_UNIQUE","AAC","AAC","2","3.96","0.01","0.99","0.120563271604938","","13","23","33","43"
  "3","MULTIPLE_MATCH","AAC","AAD","2","3.96","0.01","0.99","","0.12","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.99, doPsib="all", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","CHECK_UNIQUE","AAA","AAA","2","3.96","0.01","0.99","0.120563271604938","","11","21","31","41"
  "1","MULTIPLE_MATCH","AAA","AAD","2","3.96","0.01","0.99","1","0.12","14","24","-99","44"
  "2","CHECK_UNIQUE","AAB","AAB","2","3.96","0.01","0.99","0.120563271604938","","12","22","32","42"
  "2","MULTIPLE_MATCH","AAB","AAD","2","3.96","0.01","0.99","1","0.12","14","24","-99","44"
  "3","CHECK_UNIQUE","AAC","AAC","2","3.96","0.01","0.99","0.120563271604938","","13","23","33","43"
  "3","MULTIPLE_MATCH","AAC","AAD","2","3.96","0.01","0.99","1","0.12","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.99, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","CHECK_UNIQUE","AAA","AAA","2","3.96","0.01","0.99","0.120563271604938","","11","21","31","41"
  "1","MULTIPLE_MATCH","AAA","AAD","2","3.96","0.01","0.99","1","0.12","14","24","-99","44"
  "2","CHECK_UNIQUE","AAB","AAB","2","3.96","0.01","0.99","0.120563271604938","","12","22","32","42"
  "2","MULTIPLE_MATCH","AAB","AAD","2","3.96","0.01","0.99","1","0.12","14","24","-99","44"
  "3","CHECK_UNIQUE","AAC","AAC","2","3.96","0.01","0.99","0.120563271604938","","13","23","33","43"
  "3","MULTIPLE_MATCH","AAC","AAD","2","3.96","0.01","0.99","1","0.12","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.99, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","CHECK_UNIQUE","AAA","AAA","2","3.96","0.01","0.99","0.120563271604938","","11","21","31","41"
  "1","MULTIPLE_MATCH","AAA","AAD","2","3.96","0.01","0.99","1","0.12","14","24","-99","44"
  "2","CHECK_UNIQUE","AAB","AAB","2","3.96","0.01","0.99","0.120563271604938","","12","22","32","42"
  "2","MULTIPLE_MATCH","AAB","AAD","2","3.96","0.01","0.99","1","0.12","14","24","-99","44"
  "3","CHECK_UNIQUE","AAC","AAC","2","3.96","0.01","0.99","0.120563271604938","","13","23","33","43"
  "3","MULTIPLE_MATCH","AAC","AAD","2","3.96","0.01","0.99","1","0.12","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=0.99, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b"
  "1","CHECK_UNIQUE","AAA","AAA","2","3.96","0.01","0.99","0.120563271604938","","11","21","31","41"
  "1","MULTIPLE_MATCH","AAA","AAD","2","3.96","0.01","0.99","1","0.12","14","24","-99","44"
  "2","CHECK_UNIQUE","AAB","AAB","2","3.96","0.01","0.99","0.120563271604938","","12","22","32","42"
  "2","MULTIPLE_MATCH","AAB","AAD","2","3.96","0.01","0.99","1","0.12","14","24","-99","44"
  "3","CHECK_UNIQUE","AAC","AAC","2","3.96","0.01","0.99","0.120563271604938","","13","23","33","43"
  "3","MULTIPLE_MATCH","AAC","AAD","2","3.96","0.01","0.99","1","0.12","14","24","-99","44"

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=1, doPsib="missing", consensusMethod=1)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  allelematch:  amCluster:  no clusters formed.  Please set cutHeight lower and run again. 
    Rejected :  amUnique(amdataMini, cutHeight=1, doPsib="missing", consensusMethod=1)

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=1, doPsib="missing", consensusMethod=2)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  allelematch:  amCluster:  no clusters formed.  Please set cutHeight lower and run again. 
    Rejected :  amUnique(amdataMini, cutHeight=1, doPsib="missing", consensusMethod=2)

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=1, doPsib="missing", consensusMethod=3)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  allelematch:  amCluster:  no clusters formed.  Please set cutHeight lower and run again. 
    Rejected :  amUnique(amdataMini, cutHeight=1, doPsib="missing", consensusMethod=3)

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=1, doPsib="missing", consensusMethod=4)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  allelematch:  amCluster:  no clusters formed.  Please set cutHeight lower and run again. 
    Rejected :  amUnique(amdataMini, cutHeight=1, doPsib="missing", consensusMethod=4)

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=1, doPsib="all", consensusMethod=1)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  allelematch:  amCluster:  no clusters formed.  Please set cutHeight lower and run again. 
    Rejected :  amUnique(amdataMini, cutHeight=1, doPsib="all", consensusMethod=1)

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=1, doPsib="all", consensusMethod=2)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  allelematch:  amCluster:  no clusters formed.  Please set cutHeight lower and run again. 
    Rejected :  amUnique(amdataMini, cutHeight=1, doPsib="all", consensusMethod=2)

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=1, doPsib="all", consensusMethod=3)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  allelematch:  amCluster:  no clusters formed.  Please set cutHeight lower and run again. 
    Rejected :  amUnique(amdataMini, cutHeight=1, doPsib="all", consensusMethod=3)

Code
  cat(cmdstr)
Output
  amUnique(amdataMini, cutHeight=1, doPsib="all", consensusMethod=4)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  allelematch:  amCluster:  no clusters formed.  Please set cutHeight lower and run again. 
    Rejected :  amUnique(amdataMini, cutHeight=1, doPsib="all", consensusMethod=4)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0, doPsib="missing", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","2","0","1","1e-05","9.77329983861055e-05","","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","1","2","2","0","1","1e-05","9.77329983861055e-05","1","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "2","UNIQUE","3","3","2","0","1","1e-05","7.24065112999676e-05","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "2","MATCH","3","4","2","0","1","1e-05","7.24065112999676e-05","1","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "3","UNIQUE","5","5","2","0","1","1e-05","4.6500648285759e-05","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "3","MATCH","5","6","2","0","1","1e-05","4.6500648285759e-05","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "4","UNIQUE","7","7","1","0","1","1e-05","0.000135802764233345","","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "5","UNIQUE","8","8","1","0","1","1e-05","3.80617036247672e-05","","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "6","UNIQUE","9","9","2","0","1","1e-05","0.00010238258609764","","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "6","MATCH","9","10","2","0","1","1e-05","0.00010238258609764","1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "7","UNIQUE","11","11","2","0","1","1e-05","0.000118537400537509","","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "7","MATCH","11","12","2","0","1","1e-05","0.000118537400537509","1","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "8","UNIQUE","13","13","1","0","1","1e-05","3.92064761734107e-05","","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "9","UNIQUE","14","14","2","0","1","1e-05","8.15229987885279e-05","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "9","MATCH","14","15","2","0","1","1e-05","8.15229987885279e-05","1","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "10","UNIQUE","16","16","1","0","1","1e-05","7.08618155933503e-05","","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "11","UNIQUE","17","17","2","0","1","1e-05","6.65339463489891e-05","","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "11","MATCH","17","18","2","0","1","1e-05","6.65339463489891e-05","1","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "12","UNIQUE","19","19","1","0","1","1e-05","0.000302182991025378","","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "13","UNIQUE","20","20","1","0","1","1e-05","0.000118040230869288","","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","2","0","1","1e-05","9.77329983861055e-05","","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","1","2","2","0","1","1e-05","9.77329983861055e-05","1","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "2","UNIQUE","3","3","2","0","1","1e-05","7.24065112999676e-05","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "2","MATCH","3","4","2","0","1","1e-05","7.24065112999676e-05","1","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "3","UNIQUE","5","5","2","0","1","1e-05","4.6500648285759e-05","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "3","MATCH","5","6","2","0","1","1e-05","4.6500648285759e-05","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "4","UNIQUE","7","7","1","0","1","1e-05","0.000135802764233345","","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "5","UNIQUE","8","8","1","0","1","1e-05","3.80617036247672e-05","","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "6","UNIQUE","9","9","2","0","1","1e-05","0.00010238258609764","","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "6","MATCH","9","10","2","0","1","1e-05","0.00010238258609764","1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "7","UNIQUE","11","11","2","0","1","1e-05","0.000118537400537509","","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "7","MATCH","11","12","2","0","1","1e-05","0.000118537400537509","1","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "8","UNIQUE","13","13","1","0","1","1e-05","3.92064761734107e-05","","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "9","UNIQUE","14","14","2","0","1","1e-05","8.15229987885279e-05","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "9","MATCH","14","15","2","0","1","1e-05","8.15229987885279e-05","1","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "10","UNIQUE","16","16","1","0","1","1e-05","7.08618155933503e-05","","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "11","UNIQUE","17","17","2","0","1","1e-05","6.65339463489891e-05","","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "11","MATCH","17","18","2","0","1","1e-05","6.65339463489891e-05","1","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "12","UNIQUE","19","19","1","0","1","1e-05","0.000302182991025378","","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "13","UNIQUE","20","20","1","0","1","1e-05","0.000118040230869288","","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","2","0","1","1e-05","9.77329983861055e-05","","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","1","2","2","0","1","1e-05","9.77329983861055e-05","1","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "2","UNIQUE","3","3","2","0","1","1e-05","7.24065112999676e-05","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "2","MATCH","3","4","2","0","1","1e-05","7.24065112999676e-05","1","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "3","UNIQUE","5","5","2","0","1","1e-05","4.6500648285759e-05","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "3","MATCH","5","6","2","0","1","1e-05","4.6500648285759e-05","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "4","UNIQUE","7","7","1","0","1","1e-05","0.000135802764233345","","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "5","UNIQUE","8","8","1","0","1","1e-05","3.80617036247672e-05","","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "6","UNIQUE","9","9","2","0","1","1e-05","0.00010238258609764","","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "6","MATCH","9","10","2","0","1","1e-05","0.00010238258609764","1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "7","UNIQUE","11","11","2","0","1","1e-05","0.000118537400537509","","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "7","MATCH","11","12","2","0","1","1e-05","0.000118537400537509","1","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "8","UNIQUE","13","13","1","0","1","1e-05","3.92064761734107e-05","","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "9","UNIQUE","14","14","2","0","1","1e-05","8.15229987885279e-05","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "9","MATCH","14","15","2","0","1","1e-05","8.15229987885279e-05","1","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "10","UNIQUE","16","16","1","0","1","1e-05","7.08618155933503e-05","","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "11","UNIQUE","17","17","2","0","1","1e-05","6.65339463489891e-05","","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "11","MATCH","17","18","2","0","1","1e-05","6.65339463489891e-05","1","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "12","UNIQUE","19","19","1","0","1","1e-05","0.000302182991025378","","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "13","UNIQUE","20","20","1","0","1","1e-05","0.000118040230869288","","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","2","0","1","1e-05","9.77329983861055e-05","","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","1","2","2","0","1","1e-05","9.77329983861055e-05","1","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "2","UNIQUE","3","3","2","0","1","1e-05","7.24065112999676e-05","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "2","MATCH","3","4","2","0","1","1e-05","7.24065112999676e-05","1","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "3","UNIQUE","5","5","2","0","1","1e-05","4.6500648285759e-05","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "3","MATCH","5","6","2","0","1","1e-05","4.6500648285759e-05","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "4","UNIQUE","7","7","1","0","1","1e-05","0.000135802764233345","","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "5","UNIQUE","8","8","1","0","1","1e-05","3.80617036247672e-05","","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "6","UNIQUE","9","9","2","0","1","1e-05","0.00010238258609764","","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "6","MATCH","9","10","2","0","1","1e-05","0.00010238258609764","1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "7","UNIQUE","11","11","2","0","1","1e-05","0.000118537400537509","","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "7","MATCH","11","12","2","0","1","1e-05","0.000118537400537509","1","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "8","UNIQUE","13","13","1","0","1","1e-05","3.92064761734107e-05","","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "9","UNIQUE","14","14","2","0","1","1e-05","8.15229987885279e-05","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "9","MATCH","14","15","2","0","1","1e-05","8.15229987885279e-05","1","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "10","UNIQUE","16","16","1","0","1","1e-05","7.08618155933503e-05","","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "11","UNIQUE","17","17","2","0","1","1e-05","6.65339463489891e-05","","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "11","MATCH","17","18","2","0","1","1e-05","6.65339463489891e-05","1","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "12","UNIQUE","19","19","1","0","1","1e-05","0.000302182991025378","","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "13","UNIQUE","20","20","1","0","1","1e-05","0.000118040230869288","","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0, doPsib="all", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","2","0","1","1e-05","9.77329983861055e-05","","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","1","2","2","0","1","1e-05","9.77329983861055e-05","1","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "2","UNIQUE","3","3","2","0","1","1e-05","7.24065112999676e-05","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "2","MATCH","3","4","2","0","1","1e-05","7.24065112999676e-05","1","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "3","UNIQUE","5","5","2","0","1","1e-05","4.6500648285759e-05","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "3","MATCH","5","6","2","0","1","1e-05","4.6500648285759e-05","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "4","UNIQUE","7","7","1","0","1","1e-05","0.000135802764233345","","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "5","UNIQUE","8","8","1","0","1","1e-05","3.80617036247672e-05","","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "6","UNIQUE","9","9","2","0","1","1e-05","0.00010238258609764","","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "6","MATCH","9","10","2","0","1","1e-05","0.00010238258609764","1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "7","UNIQUE","11","11","2","0","1","1e-05","0.000118537400537509","","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "7","MATCH","11","12","2","0","1","1e-05","0.000118537400537509","1","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "8","UNIQUE","13","13","1","0","1","1e-05","3.92064761734107e-05","","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "9","UNIQUE","14","14","2","0","1","1e-05","8.15229987885279e-05","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "9","MATCH","14","15","2","0","1","1e-05","8.15229987885279e-05","1","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "10","UNIQUE","16","16","1","0","1","1e-05","7.08618155933503e-05","","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "11","UNIQUE","17","17","2","0","1","1e-05","6.65339463489891e-05","","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "11","MATCH","17","18","2","0","1","1e-05","6.65339463489891e-05","1","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "12","UNIQUE","19","19","1","0","1","1e-05","0.000302182991025378","","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "13","UNIQUE","20","20","1","0","1","1e-05","0.000118040230869288","","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","2","0","1","1e-05","9.77329983861055e-05","","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","1","2","2","0","1","1e-05","9.77329983861055e-05","1","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "2","UNIQUE","3","3","2","0","1","1e-05","7.24065112999676e-05","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "2","MATCH","3","4","2","0","1","1e-05","7.24065112999676e-05","1","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "3","UNIQUE","5","5","2","0","1","1e-05","4.6500648285759e-05","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "3","MATCH","5","6","2","0","1","1e-05","4.6500648285759e-05","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "4","UNIQUE","7","7","1","0","1","1e-05","0.000135802764233345","","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "5","UNIQUE","8","8","1","0","1","1e-05","3.80617036247672e-05","","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "6","UNIQUE","9","9","2","0","1","1e-05","0.00010238258609764","","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "6","MATCH","9","10","2","0","1","1e-05","0.00010238258609764","1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "7","UNIQUE","11","11","2","0","1","1e-05","0.000118537400537509","","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "7","MATCH","11","12","2","0","1","1e-05","0.000118537400537509","1","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "8","UNIQUE","13","13","1","0","1","1e-05","3.92064761734107e-05","","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "9","UNIQUE","14","14","2","0","1","1e-05","8.15229987885279e-05","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "9","MATCH","14","15","2","0","1","1e-05","8.15229987885279e-05","1","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "10","UNIQUE","16","16","1","0","1","1e-05","7.08618155933503e-05","","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "11","UNIQUE","17","17","2","0","1","1e-05","6.65339463489891e-05","","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "11","MATCH","17","18","2","0","1","1e-05","6.65339463489891e-05","1","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "12","UNIQUE","19","19","1","0","1","1e-05","0.000302182991025378","","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "13","UNIQUE","20","20","1","0","1","1e-05","0.000118040230869288","","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","2","0","1","1e-05","9.77329983861055e-05","","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","1","2","2","0","1","1e-05","9.77329983861055e-05","1","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "2","UNIQUE","3","3","2","0","1","1e-05","7.24065112999676e-05","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "2","MATCH","3","4","2","0","1","1e-05","7.24065112999676e-05","1","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "3","UNIQUE","5","5","2","0","1","1e-05","4.6500648285759e-05","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "3","MATCH","5","6","2","0","1","1e-05","4.6500648285759e-05","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "4","UNIQUE","7","7","1","0","1","1e-05","0.000135802764233345","","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "5","UNIQUE","8","8","1","0","1","1e-05","3.80617036247672e-05","","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "6","UNIQUE","9","9","2","0","1","1e-05","0.00010238258609764","","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "6","MATCH","9","10","2","0","1","1e-05","0.00010238258609764","1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "7","UNIQUE","11","11","2","0","1","1e-05","0.000118537400537509","","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "7","MATCH","11","12","2","0","1","1e-05","0.000118537400537509","1","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "8","UNIQUE","13","13","1","0","1","1e-05","3.92064761734107e-05","","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "9","UNIQUE","14","14","2","0","1","1e-05","8.15229987885279e-05","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "9","MATCH","14","15","2","0","1","1e-05","8.15229987885279e-05","1","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "10","UNIQUE","16","16","1","0","1","1e-05","7.08618155933503e-05","","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "11","UNIQUE","17","17","2","0","1","1e-05","6.65339463489891e-05","","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "11","MATCH","17","18","2","0","1","1e-05","6.65339463489891e-05","1","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "12","UNIQUE","19","19","1","0","1","1e-05","0.000302182991025378","","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "13","UNIQUE","20","20","1","0","1","1e-05","0.000118040230869288","","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","2","0","1","1e-05","9.77329983861055e-05","","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","1","2","2","0","1","1e-05","9.77329983861055e-05","1","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "2","UNIQUE","3","3","2","0","1","1e-05","7.24065112999676e-05","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "2","MATCH","3","4","2","0","1","1e-05","7.24065112999676e-05","1","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "3","UNIQUE","5","5","2","0","1","1e-05","4.6500648285759e-05","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "3","MATCH","5","6","2","0","1","1e-05","4.6500648285759e-05","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "4","UNIQUE","7","7","1","0","1","1e-05","0.000135802764233345","","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "5","UNIQUE","8","8","1","0","1","1e-05","3.80617036247672e-05","","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "6","UNIQUE","9","9","2","0","1","1e-05","0.00010238258609764","","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "6","MATCH","9","10","2","0","1","1e-05","0.00010238258609764","1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "7","UNIQUE","11","11","2","0","1","1e-05","0.000118537400537509","","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "7","MATCH","11","12","2","0","1","1e-05","0.000118537400537509","1","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "8","UNIQUE","13","13","1","0","1","1e-05","3.92064761734107e-05","","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "9","UNIQUE","14","14","2","0","1","1e-05","8.15229987885279e-05","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "9","MATCH","14","15","2","0","1","1e-05","8.15229987885279e-05","1","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "10","UNIQUE","16","16","1","0","1","1e-05","7.08618155933503e-05","","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "11","UNIQUE","17","17","2","0","1","1e-05","6.65339463489891e-05","","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "11","MATCH","17","18","2","0","1","1e-05","6.65339463489891e-05","1","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "12","UNIQUE","19","19","1","0","1","1e-05","0.000302182991025378","","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "13","UNIQUE","20","20","1","0","1","1e-05","0.000118040230869288","","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.3, doPsib="missing", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","2","6","0.7","0.3","9.84097837711721e-05","","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","1","2","2","6","0.7","0.3","9.84097837711721e-05","1","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "2","UNIQUE","3","3","2","6","0.7","0.3","7.6700235101921e-05","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "2","MATCH","3","4","2","6","0.7","0.3","7.6700235101921e-05","1","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "3","UNIQUE","5","5","2","6","0.7","0.3","4.755381397187e-05","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "3","MATCH","5","6","2","6","0.7","0.3","4.755381397187e-05","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "4","UNIQUE","7","7","1","6","0.7","0.3","0.000147527555438071","","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "5","UNIQUE","8","8","1","6","0.7","0.3","4.20062196368826e-05","","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "6","UNIQUE","9","9","2","6","0.7","0.3","0.000127630848132018","","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "6","MATCH","9","10","2","6","0.7","0.3","0.000127630848132018","1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "7","UNIQUE","11","11","2","6","0.7","0.3","0.000100870314036143","","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "7","MATCH","11","12","2","6","0.7","0.3","0.000100870314036143","1","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "8","UNIQUE","13","13","1","6","0.7","0.3","3.91984649146532e-05","","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "9","UNIQUE","14","14","2","6","0.7","0.3","8.9111773012628e-05","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "9","MATCH","14","15","2","6","0.7","0.3","8.9111773012628e-05","1","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "10","UNIQUE","16","16","1","6","0.7","0.3","7.17718409894783e-05","","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "11","UNIQUE","17","17","2","6","0.7","0.3","6.79610528590075e-05","","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "11","MATCH","17","18","2","6","0.7","0.3","6.79610528590075e-05","1","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "12","UNIQUE","19","19","2","6","0.7","0.3","0.000200530393635651","","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "12","MATCH","19","20","2","6","0.7","0.3","0.000200530393635651","0.95","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.3, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","2","6","0.7","0.3","9.62990253991463e-05","","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","1","2","2","6","0.7","0.3","9.62990253991463e-05","1","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "2","UNIQUE","3","3","2","6","0.7","0.3","7.71251671523472e-05","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "2","MATCH","3","4","2","6","0.7","0.3","7.71251671523472e-05","1","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "3","UNIQUE","5","5","2","6","0.7","0.3","4.93313742335071e-05","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "3","MATCH","5","6","2","6","0.7","0.3","4.93313742335071e-05","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "4","UNIQUE","7","7","1","6","0.7","0.3","0.000143769046053965","","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "5","UNIQUE","8","8","1","6","0.7","0.3","4.23367164018773e-05","","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "6","UNIQUE","9","9","2","6","0.7","0.3","0.000123722019668899","","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "6","MATCH","9","10","2","6","0.7","0.3","0.000123722019668899","1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "7","UNIQUE","11","11","2","6","0.7","0.3","0.00010565536702193","","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "7","MATCH","11","12","2","6","0.7","0.3","0.00010565536702193","1","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "8","UNIQUE","13","13","1","6","0.7","0.3","3.98169709318983e-05","","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "9","UNIQUE","14","14","2","6","0.7","0.3","8.69411594940411e-05","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "9","MATCH","14","15","2","6","0.7","0.3","8.69411594940411e-05","1","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "10","UNIQUE","16","16","1","6","0.7","0.3","7.29043168560054e-05","","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "11","UNIQUE","17","17","2","6","0.7","0.3","6.81638544093163e-05","","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "11","MATCH","17","18","2","6","0.7","0.3","6.81638544093163e-05","1","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "12","UNIQUE","19","19","2","6","0.7","0.3","7.83321850139261e-05","","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "12","MATCH","19","20","2","6","0.7","0.3","7.83321850139261e-05","1","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.3, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","2","6","0.7","0.3","9.62990253991463e-05","","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","1","2","2","6","0.7","0.3","9.62990253991463e-05","1","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "2","UNIQUE","3","3","2","6","0.7","0.3","7.71251671523472e-05","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "2","MATCH","3","4","2","6","0.7","0.3","7.71251671523472e-05","1","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "3","UNIQUE","5","5","2","6","0.7","0.3","4.93313742335071e-05","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "3","MATCH","5","6","2","6","0.7","0.3","4.93313742335071e-05","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "4","UNIQUE","7","7","1","6","0.7","0.3","0.000143769046053965","","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "5","UNIQUE","8","8","1","6","0.7","0.3","4.23367164018773e-05","","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "6","UNIQUE","9","9","2","6","0.7","0.3","0.000123722019668899","","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "6","MATCH","9","10","2","6","0.7","0.3","0.000123722019668899","1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "7","UNIQUE","11","11","2","6","0.7","0.3","0.00010565536702193","","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "7","MATCH","11","12","2","6","0.7","0.3","0.00010565536702193","1","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "8","UNIQUE","13","13","1","6","0.7","0.3","3.98169709318983e-05","","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "9","UNIQUE","14","14","2","6","0.7","0.3","8.69411594940411e-05","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "9","MATCH","14","15","2","6","0.7","0.3","8.69411594940411e-05","1","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "10","UNIQUE","16","16","1","6","0.7","0.3","7.29043168560054e-05","","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "11","UNIQUE","17","17","2","6","0.7","0.3","6.81638544093163e-05","","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "11","MATCH","17","18","2","6","0.7","0.3","6.81638544093163e-05","1","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "12","UNIQUE","20","20","2","6","0.7","0.3","7.83321850139261e-05","","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "12","MATCH","20","19","2","6","0.7","0.3","0.000200530393635651","0.95","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.3, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","2","6","0.7","0.3","9.62990253991463e-05","","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","1","2","2","6","0.7","0.3","9.62990253991463e-05","1","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "2","UNIQUE","3","3","2","6","0.7","0.3","7.71251671523472e-05","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "2","MATCH","3","4","2","6","0.7","0.3","7.71251671523472e-05","1","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "3","UNIQUE","5","5","2","6","0.7","0.3","4.93313742335071e-05","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "3","MATCH","5","6","2","6","0.7","0.3","4.93313742335071e-05","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "4","UNIQUE","7","7","1","6","0.7","0.3","0.000143769046053965","","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "5","UNIQUE","8","8","1","6","0.7","0.3","4.23367164018773e-05","","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "6","UNIQUE","9","9","2","6","0.7","0.3","0.000123722019668899","","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "6","MATCH","9","10","2","6","0.7","0.3","0.000123722019668899","1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "7","UNIQUE","11","11","2","6","0.7","0.3","0.00010565536702193","","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "7","MATCH","11","12","2","6","0.7","0.3","0.00010565536702193","1","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "8","UNIQUE","13","13","1","6","0.7","0.3","3.98169709318983e-05","","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "9","UNIQUE","14","14","2","6","0.7","0.3","8.69411594940411e-05","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "9","MATCH","14","15","2","6","0.7","0.3","8.69411594940411e-05","1","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "10","UNIQUE","16","16","1","6","0.7","0.3","7.29043168560054e-05","","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "11","UNIQUE","17","17","2","6","0.7","0.3","6.81638544093163e-05","","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "11","MATCH","17","18","2","6","0.7","0.3","6.81638544093163e-05","1","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "12","UNIQUE","20","20","2","6","0.7","0.3","7.83321850139261e-05","","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "12","MATCH","20","19","2","6","0.7","0.3","0.000200530393635651","0.95","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.3, doPsib="all", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","2","6","0.7","0.3","9.84097837711721e-05","","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","1","2","2","6","0.7","0.3","9.84097837711721e-05","1","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "2","UNIQUE","3","3","2","6","0.7","0.3","7.6700235101921e-05","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "2","MATCH","3","4","2","6","0.7","0.3","7.6700235101921e-05","1","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "3","UNIQUE","5","5","2","6","0.7","0.3","4.755381397187e-05","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "3","MATCH","5","6","2","6","0.7","0.3","4.755381397187e-05","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "4","UNIQUE","7","7","1","6","0.7","0.3","0.000147527555438071","","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "5","UNIQUE","8","8","1","6","0.7","0.3","4.20062196368826e-05","","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "6","UNIQUE","9","9","2","6","0.7","0.3","0.000127630848132018","","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "6","MATCH","9","10","2","6","0.7","0.3","0.000127630848132018","1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "7","UNIQUE","11","11","2","6","0.7","0.3","0.000100870314036143","","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "7","MATCH","11","12","2","6","0.7","0.3","0.000100870314036143","1","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "8","UNIQUE","13","13","1","6","0.7","0.3","3.91984649146532e-05","","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "9","UNIQUE","14","14","2","6","0.7","0.3","8.9111773012628e-05","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "9","MATCH","14","15","2","6","0.7","0.3","8.9111773012628e-05","1","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "10","UNIQUE","16","16","1","6","0.7","0.3","7.17718409894783e-05","","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "11","UNIQUE","17","17","2","6","0.7","0.3","6.79610528590075e-05","","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "11","MATCH","17","18","2","6","0.7","0.3","6.79610528590075e-05","1","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "12","UNIQUE","19","19","2","6","0.7","0.3","0.000200530393635651","","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "12","MATCH","19","20","2","6","0.7","0.3","0.000200530393635651","0.95","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.3, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","2","6","0.7","0.3","9.62990253991463e-05","","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","1","2","2","6","0.7","0.3","9.62990253991463e-05","1","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "2","UNIQUE","3","3","2","6","0.7","0.3","7.71251671523472e-05","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "2","MATCH","3","4","2","6","0.7","0.3","7.71251671523472e-05","1","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "3","UNIQUE","5","5","2","6","0.7","0.3","4.93313742335071e-05","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "3","MATCH","5","6","2","6","0.7","0.3","4.93313742335071e-05","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "4","UNIQUE","7","7","1","6","0.7","0.3","0.000143769046053965","","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "5","UNIQUE","8","8","1","6","0.7","0.3","4.23367164018773e-05","","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "6","UNIQUE","9","9","2","6","0.7","0.3","0.000123722019668899","","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "6","MATCH","9","10","2","6","0.7","0.3","0.000123722019668899","1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "7","UNIQUE","11","11","2","6","0.7","0.3","0.00010565536702193","","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "7","MATCH","11","12","2","6","0.7","0.3","0.00010565536702193","1","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "8","UNIQUE","13","13","1","6","0.7","0.3","3.98169709318983e-05","","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "9","UNIQUE","14","14","2","6","0.7","0.3","8.69411594940411e-05","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "9","MATCH","14","15","2","6","0.7","0.3","8.69411594940411e-05","1","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "10","UNIQUE","16","16","1","6","0.7","0.3","7.29043168560054e-05","","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "11","UNIQUE","17","17","2","6","0.7","0.3","6.81638544093163e-05","","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "11","MATCH","17","18","2","6","0.7","0.3","6.81638544093163e-05","1","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "12","UNIQUE","19","19","2","6","0.7","0.3","7.83321850139261e-05","","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "12","MATCH","19","20","2","6","0.7","0.3","7.83321850139261e-05","1","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.3, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","2","6","0.7","0.3","9.62990253991463e-05","","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","1","2","2","6","0.7","0.3","9.62990253991463e-05","1","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "2","UNIQUE","3","3","2","6","0.7","0.3","7.71251671523472e-05","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "2","MATCH","3","4","2","6","0.7","0.3","7.71251671523472e-05","1","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "3","UNIQUE","5","5","2","6","0.7","0.3","4.93313742335071e-05","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "3","MATCH","5","6","2","6","0.7","0.3","4.93313742335071e-05","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "4","UNIQUE","7","7","1","6","0.7","0.3","0.000143769046053965","","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "5","UNIQUE","8","8","1","6","0.7","0.3","4.23367164018773e-05","","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "6","UNIQUE","9","9","2","6","0.7","0.3","0.000123722019668899","","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "6","MATCH","9","10","2","6","0.7","0.3","0.000123722019668899","1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "7","UNIQUE","11","11","2","6","0.7","0.3","0.00010565536702193","","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "7","MATCH","11","12","2","6","0.7","0.3","0.00010565536702193","1","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "8","UNIQUE","13","13","1","6","0.7","0.3","3.98169709318983e-05","","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "9","UNIQUE","14","14","2","6","0.7","0.3","8.69411594940411e-05","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "9","MATCH","14","15","2","6","0.7","0.3","8.69411594940411e-05","1","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "10","UNIQUE","16","16","1","6","0.7","0.3","7.29043168560054e-05","","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "11","UNIQUE","17","17","2","6","0.7","0.3","6.81638544093163e-05","","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "11","MATCH","17","18","2","6","0.7","0.3","6.81638544093163e-05","1","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "12","UNIQUE","20","20","2","6","0.7","0.3","7.83321850139261e-05","","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "12","MATCH","20","19","2","6","0.7","0.3","0.000200530393635651","0.95","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.3, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","2","6","0.7","0.3","9.62990253991463e-05","","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","1","2","2","6","0.7","0.3","9.62990253991463e-05","1","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "2","UNIQUE","3","3","2","6","0.7","0.3","7.71251671523472e-05","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "2","MATCH","3","4","2","6","0.7","0.3","7.71251671523472e-05","1","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "3","UNIQUE","5","5","2","6","0.7","0.3","4.93313742335071e-05","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "3","MATCH","5","6","2","6","0.7","0.3","4.93313742335071e-05","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "4","UNIQUE","7","7","1","6","0.7","0.3","0.000143769046053965","","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "5","UNIQUE","8","8","1","6","0.7","0.3","4.23367164018773e-05","","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "6","UNIQUE","9","9","2","6","0.7","0.3","0.000123722019668899","","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "6","MATCH","9","10","2","6","0.7","0.3","0.000123722019668899","1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "7","UNIQUE","11","11","2","6","0.7","0.3","0.00010565536702193","","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "7","MATCH","11","12","2","6","0.7","0.3","0.00010565536702193","1","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "8","UNIQUE","13","13","1","6","0.7","0.3","3.98169709318983e-05","","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "9","UNIQUE","14","14","2","6","0.7","0.3","8.69411594940411e-05","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "9","MATCH","14","15","2","6","0.7","0.3","8.69411594940411e-05","1","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "10","UNIQUE","16","16","1","6","0.7","0.3","7.29043168560054e-05","","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "11","UNIQUE","17","17","2","6","0.7","0.3","6.81638544093163e-05","","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "11","MATCH","17","18","2","6","0.7","0.3","6.81638544093163e-05","1","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "12","UNIQUE","20","20","2","6","0.7","0.3","7.83321850139261e-05","","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "12","MATCH","20","19","2","6","0.7","0.3","0.000200530393635651","0.95","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.5, doPsib="missing", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","2","10","0.5","0.5","9.56548583150291e-05","","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","1","2","2","10","0.5","0.5","9.56548583150291e-05","1","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "2","UNIQUE","3","3","2","10","0.5","0.5","8.2244913031701e-05","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "2","MATCH","3","4","2","10","0.5","0.5","8.2244913031701e-05","1","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "3","UNIQUE","5","5","2","10","0.5","0.5","5.08411275281655e-05","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "3","MATCH","5","6","2","10","0.5","0.5","5.08411275281655e-05","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "4","UNIQUE","7","7","1","10","0.5","0.5","0.000156365464556063","","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "5","UNIQUE","8","8","1","10","0.5","0.5","4.73581273376898e-05","","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "6","UNIQUE","9","9","2","10","0.5","0.5","0.000158700499253362","","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "6","MATCH","9","10","2","10","0.5","0.5","0.000158700499253362","1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "7","UNIQUE","11","11","4","10","0.5","0.5","8.72343340060504e-05","","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "7","MATCH","11","12","4","10","0.5","0.5","8.72343340060504e-05","1","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "7","MATCH","11","20","4","10","0.5","0.5","","0.6","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "7","MATCH","11","19","4","10","0.5","0.5","","0.55","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "8","UNIQUE","13","13","1","10","0.5","0.5","3.96252445808053e-05","","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "9","UNIQUE","14","14","2","10","0.5","0.5","9.50439599730015e-05","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "9","MATCH","14","15","2","10","0.5","0.5","9.50439599730015e-05","1","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "10","UNIQUE","16","16","1","10","0.5","0.5","7.38228592231266e-05","","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "11","UNIQUE","17","17","2","10","0.5","0.5","6.92521367686758e-05","","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "11","MATCH","17","18","2","10","0.5","0.5","6.92521367686758e-05","1","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.5, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","2","10","0.5","0.5","9.56548583150291e-05","","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","1","2","2","10","0.5","0.5","9.56548583150291e-05","1","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "2","UNIQUE","3","3","2","10","0.5","0.5","8.2244913031701e-05","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "2","MATCH","3","4","2","10","0.5","0.5","8.2244913031701e-05","1","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "3","UNIQUE","5","5","2","10","0.5","0.5","5.08411275281655e-05","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "3","MATCH","5","6","2","10","0.5","0.5","5.08411275281655e-05","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "4","UNIQUE","7","7","1","10","0.5","0.5","0.000156365464556063","","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "5","UNIQUE","8","8","1","10","0.5","0.5","4.73581273376898e-05","","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "6","UNIQUE","9","9","2","10","0.5","0.5","0.000158700499253362","","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "6","MATCH","9","10","2","10","0.5","0.5","0.000158700499253362","1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "7","UNIQUE","11","11","4","10","0.5","0.5","8.72343340060504e-05","","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "7","MATCH","11","12","4","10","0.5","0.5","8.72343340060504e-05","1","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "7","MATCH","11","20","4","10","0.5","0.5","","0.6","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "7","MATCH","11","19","4","10","0.5","0.5","","0.55","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "8","UNIQUE","13","13","1","10","0.5","0.5","3.96252445808053e-05","","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "9","UNIQUE","14","14","2","10","0.5","0.5","9.50439599730015e-05","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "9","MATCH","14","15","2","10","0.5","0.5","9.50439599730015e-05","1","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "10","UNIQUE","16","16","1","10","0.5","0.5","7.38228592231266e-05","","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "11","UNIQUE","17","17","2","10","0.5","0.5","6.92521367686758e-05","","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "11","MATCH","17","18","2","10","0.5","0.5","6.92521367686758e-05","1","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.5, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","2","10","0.5","0.5","9.56548583150291e-05","","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","1","2","2","10","0.5","0.5","9.56548583150291e-05","1","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "2","UNIQUE","3","3","2","10","0.5","0.5","8.2244913031701e-05","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "2","MATCH","3","4","2","10","0.5","0.5","8.2244913031701e-05","1","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "3","UNIQUE","5","5","2","10","0.5","0.5","5.08411275281655e-05","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "3","MATCH","5","6","2","10","0.5","0.5","5.08411275281655e-05","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "4","UNIQUE","7","7","1","10","0.5","0.5","0.000156365464556063","","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "5","UNIQUE","8","8","1","10","0.5","0.5","4.73581273376898e-05","","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "6","UNIQUE","9","9","2","10","0.5","0.5","0.000158700499253362","","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "6","MATCH","9","10","2","10","0.5","0.5","0.000158700499253362","1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "7","UNIQUE","11","11","4","10","0.5","0.5","8.72343340060504e-05","","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "7","MATCH","11","12","4","10","0.5","0.5","8.72343340060504e-05","1","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "7","MATCH","11","20","4","10","0.5","0.5","","0.6","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "7","MATCH","11","19","4","10","0.5","0.5","","0.55","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "8","UNIQUE","13","13","1","10","0.5","0.5","3.96252445808053e-05","","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "9","UNIQUE","14","14","2","10","0.5","0.5","9.50439599730015e-05","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "9","MATCH","14","15","2","10","0.5","0.5","9.50439599730015e-05","1","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "10","UNIQUE","16","16","1","10","0.5","0.5","7.38228592231266e-05","","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "11","UNIQUE","17","17","2","10","0.5","0.5","6.92521367686758e-05","","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "11","MATCH","17","18","2","10","0.5","0.5","6.92521367686758e-05","1","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.5, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","2","10","0.5","0.5","9.56548583150291e-05","","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","1","2","2","10","0.5","0.5","9.56548583150291e-05","1","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "2","UNIQUE","3","3","2","10","0.5","0.5","8.2244913031701e-05","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "2","MATCH","3","4","2","10","0.5","0.5","8.2244913031701e-05","1","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "3","UNIQUE","5","5","2","10","0.5","0.5","5.08411275281655e-05","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "3","MATCH","5","6","2","10","0.5","0.5","5.08411275281655e-05","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "4","UNIQUE","7","7","1","10","0.5","0.5","0.000156365464556063","","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "5","UNIQUE","8","8","1","10","0.5","0.5","4.73581273376898e-05","","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "6","UNIQUE","9","9","2","10","0.5","0.5","0.000158700499253362","","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "6","MATCH","9","10","2","10","0.5","0.5","0.000158700499253362","1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "7","UNIQUE","11","11","4","10","0.5","0.5","8.72343340060504e-05","","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "7","MATCH","11","12","4","10","0.5","0.5","8.72343340060504e-05","1","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "7","MATCH","11","20","4","10","0.5","0.5","","0.6","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "7","MATCH","11","19","4","10","0.5","0.5","","0.55","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "8","UNIQUE","13","13","1","10","0.5","0.5","3.96252445808053e-05","","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "9","UNIQUE","14","14","2","10","0.5","0.5","9.50439599730015e-05","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "9","MATCH","14","15","2","10","0.5","0.5","9.50439599730015e-05","1","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "10","UNIQUE","16","16","1","10","0.5","0.5","7.38228592231266e-05","","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "11","UNIQUE","17","17","2","10","0.5","0.5","6.92521367686758e-05","","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "11","MATCH","17","18","2","10","0.5","0.5","6.92521367686758e-05","1","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.5, doPsib="all", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","2","10","0.5","0.5","9.56548583150291e-05","","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","1","2","2","10","0.5","0.5","9.56548583150291e-05","1","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "2","UNIQUE","3","3","2","10","0.5","0.5","8.2244913031701e-05","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "2","MATCH","3","4","2","10","0.5","0.5","8.2244913031701e-05","1","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "3","UNIQUE","5","5","2","10","0.5","0.5","5.08411275281655e-05","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "3","MATCH","5","6","2","10","0.5","0.5","5.08411275281655e-05","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "4","UNIQUE","7","7","1","10","0.5","0.5","0.000156365464556063","","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "5","UNIQUE","8","8","1","10","0.5","0.5","4.73581273376898e-05","","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "6","UNIQUE","9","9","2","10","0.5","0.5","0.000158700499253362","","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "6","MATCH","9","10","2","10","0.5","0.5","0.000158700499253362","1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "7","UNIQUE","11","11","4","10","0.5","0.5","8.72343340060504e-05","","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "7","MATCH","11","12","4","10","0.5","0.5","8.72343340060504e-05","1","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "7","MATCH","11","20","4","10","0.5","0.5","0.0193898214022637","0.6","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "7","MATCH","11","19","4","10","0.5","0.5","0.0519926512947127","0.55","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "8","UNIQUE","13","13","1","10","0.5","0.5","3.96252445808053e-05","","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "9","UNIQUE","14","14","2","10","0.5","0.5","9.50439599730015e-05","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "9","MATCH","14","15","2","10","0.5","0.5","9.50439599730015e-05","1","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "10","UNIQUE","16","16","1","10","0.5","0.5","7.38228592231266e-05","","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "11","UNIQUE","17","17","2","10","0.5","0.5","6.92521367686758e-05","","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "11","MATCH","17","18","2","10","0.5","0.5","6.92521367686758e-05","1","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.5, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","2","10","0.5","0.5","9.56548583150291e-05","","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","1","2","2","10","0.5","0.5","9.56548583150291e-05","1","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "2","UNIQUE","3","3","2","10","0.5","0.5","8.2244913031701e-05","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "2","MATCH","3","4","2","10","0.5","0.5","8.2244913031701e-05","1","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "3","UNIQUE","5","5","2","10","0.5","0.5","5.08411275281655e-05","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "3","MATCH","5","6","2","10","0.5","0.5","5.08411275281655e-05","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "4","UNIQUE","7","7","1","10","0.5","0.5","0.000156365464556063","","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "5","UNIQUE","8","8","1","10","0.5","0.5","4.73581273376898e-05","","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "6","UNIQUE","9","9","2","10","0.5","0.5","0.000158700499253362","","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "6","MATCH","9","10","2","10","0.5","0.5","0.000158700499253362","1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "7","UNIQUE","11","11","4","10","0.5","0.5","8.72343340060504e-05","","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "7","MATCH","11","12","4","10","0.5","0.5","8.72343340060504e-05","1","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "7","MATCH","11","20","4","10","0.5","0.5","0.0193898214022637","0.6","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "7","MATCH","11","19","4","10","0.5","0.5","0.0519926512947127","0.55","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "8","UNIQUE","13","13","1","10","0.5","0.5","3.96252445808053e-05","","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "9","UNIQUE","14","14","2","10","0.5","0.5","9.50439599730015e-05","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "9","MATCH","14","15","2","10","0.5","0.5","9.50439599730015e-05","1","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "10","UNIQUE","16","16","1","10","0.5","0.5","7.38228592231266e-05","","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "11","UNIQUE","17","17","2","10","0.5","0.5","6.92521367686758e-05","","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "11","MATCH","17","18","2","10","0.5","0.5","6.92521367686758e-05","1","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.5, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","2","10","0.5","0.5","9.56548583150291e-05","","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","1","2","2","10","0.5","0.5","9.56548583150291e-05","1","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "2","UNIQUE","3","3","2","10","0.5","0.5","8.2244913031701e-05","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "2","MATCH","3","4","2","10","0.5","0.5","8.2244913031701e-05","1","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "3","UNIQUE","5","5","2","10","0.5","0.5","5.08411275281655e-05","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "3","MATCH","5","6","2","10","0.5","0.5","5.08411275281655e-05","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "4","UNIQUE","7","7","1","10","0.5","0.5","0.000156365464556063","","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "5","UNIQUE","8","8","1","10","0.5","0.5","4.73581273376898e-05","","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "6","UNIQUE","9","9","2","10","0.5","0.5","0.000158700499253362","","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "6","MATCH","9","10","2","10","0.5","0.5","0.000158700499253362","1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "7","UNIQUE","11","11","4","10","0.5","0.5","8.72343340060504e-05","","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "7","MATCH","11","12","4","10","0.5","0.5","8.72343340060504e-05","1","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "7","MATCH","11","20","4","10","0.5","0.5","0.0193898214022637","0.6","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "7","MATCH","11","19","4","10","0.5","0.5","0.0519926512947127","0.55","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "8","UNIQUE","13","13","1","10","0.5","0.5","3.96252445808053e-05","","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "9","UNIQUE","14","14","2","10","0.5","0.5","9.50439599730015e-05","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "9","MATCH","14","15","2","10","0.5","0.5","9.50439599730015e-05","1","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "10","UNIQUE","16","16","1","10","0.5","0.5","7.38228592231266e-05","","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "11","UNIQUE","17","17","2","10","0.5","0.5","6.92521367686758e-05","","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "11","MATCH","17","18","2","10","0.5","0.5","6.92521367686758e-05","1","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.5, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","2","10","0.5","0.5","9.56548583150291e-05","","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","1","2","2","10","0.5","0.5","9.56548583150291e-05","1","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "2","UNIQUE","3","3","2","10","0.5","0.5","8.2244913031701e-05","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "2","MATCH","3","4","2","10","0.5","0.5","8.2244913031701e-05","1","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "3","UNIQUE","5","5","2","10","0.5","0.5","5.08411275281655e-05","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "3","MATCH","5","6","2","10","0.5","0.5","5.08411275281655e-05","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "4","UNIQUE","7","7","1","10","0.5","0.5","0.000156365464556063","","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "5","UNIQUE","8","8","1","10","0.5","0.5","4.73581273376898e-05","","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "6","UNIQUE","9","9","2","10","0.5","0.5","0.000158700499253362","","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "6","MATCH","9","10","2","10","0.5","0.5","0.000158700499253362","1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "7","UNIQUE","11","11","4","10","0.5","0.5","8.72343340060504e-05","","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "7","MATCH","11","12","4","10","0.5","0.5","8.72343340060504e-05","1","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "7","MATCH","11","20","4","10","0.5","0.5","0.0193898214022637","0.6","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "7","MATCH","11","19","4","10","0.5","0.5","0.0519926512947127","0.55","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "8","UNIQUE","13","13","1","10","0.5","0.5","3.96252445808053e-05","","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "9","UNIQUE","14","14","2","10","0.5","0.5","9.50439599730015e-05","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "9","MATCH","14","15","2","10","0.5","0.5","9.50439599730015e-05","1","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "10","UNIQUE","16","16","1","10","0.5","0.5","7.38228592231266e-05","","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "11","UNIQUE","17","17","2","10","0.5","0.5","6.92521367686758e-05","","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "11","MATCH","17","18","2","10","0.5","0.5","6.92521367686758e-05","1","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.7, doPsib="missing", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","3","","","14","0.3","0.7","","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "","UNCLASSIFIED","4","","","14","0.3","0.7","","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","CHECK_UNIQUE","1","1","8","14","0.3","0.7","0.00010119040879723","","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","1","2","8","14","0.3","0.7","0.00010119040879723","1","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MULTIPLE_MATCH","1","7","8","14","0.3","0.7","","0.4","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "1","MATCH","1","14","8","14","0.3","0.7","","0.4","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","MATCH","1","15","8","14","0.3","0.7","","0.4","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","MULTIPLE_MATCH","1","9","8","14","0.3","0.7","","0.35","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MULTIPLE_MATCH","1","10","8","14","0.3","0.7","","0.35","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MULTIPLE_MATCH","1","19","8","14","0.3","0.7","","0.35","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "2","CHECK_UNIQUE","5","5","3","14","0.3","0.7","0.000106734586425305","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "2","MATCH","5","6","3","14","0.3","0.7","0.000106734586425305","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "2","MULTIPLE_MATCH","5","7","3","14","0.3","0.7","","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "3","UNIQUE","8","8","1","14","0.3","0.7","9.53999059918256e-05","","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "4","CHECK_UNIQUE","11","11","7","14","0.3","0.7","0.000113260009207456","","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "4","MATCH","11","12","7","14","0.3","0.7","0.000113260009207456","1","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "4","MATCH","11","20","7","14","0.3","0.7","","0.6","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "4","MULTIPLE_MATCH","11","19","7","14","0.3","0.7","","0.55","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "4","MATCH","11","17","7","14","0.3","0.7","","0.4","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "4","MATCH","11","18","7","14","0.3","0.7","","0.4","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "4","MULTIPLE_MATCH","11","7","7","14","0.3","0.7","","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "5","CHECK_UNIQUE","13","13","4","14","0.3","0.7","6.04577149638958e-05","","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "5","MULTIPLE_MATCH","13","9","4","14","0.3","0.7","","0.4","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "5","MULTIPLE_MATCH","13","10","4","14","0.3","0.7","","0.4","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "5","MATCH","13","16","4","14","0.3","0.7","","0.4","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.7, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","3","","","14","0.3","0.7","","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "","UNCLASSIFIED","4","","","14","0.3","0.7","","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","CHECK_UNIQUE","1","1","8","14","0.3","0.7","0.00010119040879723","","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","1","2","8","14","0.3","0.7","0.00010119040879723","1","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MULTIPLE_MATCH","1","7","8","14","0.3","0.7","","0.4","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "1","MATCH","1","14","8","14","0.3","0.7","","0.4","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","MATCH","1","15","8","14","0.3","0.7","","0.4","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","MULTIPLE_MATCH","1","9","8","14","0.3","0.7","","0.35","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MULTIPLE_MATCH","1","10","8","14","0.3","0.7","","0.35","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MULTIPLE_MATCH","1","19","8","14","0.3","0.7","","0.35","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "2","CHECK_UNIQUE","5","5","3","14","0.3","0.7","0.000106734586425305","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "2","MATCH","5","6","3","14","0.3","0.7","0.000106734586425305","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "2","MULTIPLE_MATCH","5","7","3","14","0.3","0.7","","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "3","UNIQUE","8","8","1","14","0.3","0.7","9.53999059918256e-05","","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "4","CHECK_UNIQUE","11","11","7","14","0.3","0.7","0.000113260009207456","","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "4","MATCH","11","12","7","14","0.3","0.7","0.000113260009207456","1","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "4","MATCH","11","20","7","14","0.3","0.7","","0.6","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "4","MULTIPLE_MATCH","11","19","7","14","0.3","0.7","","0.55","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "4","MATCH","11","17","7","14","0.3","0.7","","0.4","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "4","MATCH","11","18","7","14","0.3","0.7","","0.4","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "4","MULTIPLE_MATCH","11","7","7","14","0.3","0.7","","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "5","CHECK_UNIQUE","13","13","4","14","0.3","0.7","6.04577149638958e-05","","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "5","MULTIPLE_MATCH","13","9","4","14","0.3","0.7","","0.4","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "5","MULTIPLE_MATCH","13","10","4","14","0.3","0.7","","0.4","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "5","MATCH","13","16","4","14","0.3","0.7","","0.4","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.7, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","3","","","14","0.3","0.7","","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "","UNCLASSIFIED","4","","","14","0.3","0.7","","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","CHECK_UNIQUE","1","1","8","14","0.3","0.7","0.00010119040879723","","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","1","2","8","14","0.3","0.7","0.00010119040879723","1","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MULTIPLE_MATCH","1","7","8","14","0.3","0.7","","0.4","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "1","MATCH","1","14","8","14","0.3","0.7","","0.4","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","MATCH","1","15","8","14","0.3","0.7","","0.4","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","MULTIPLE_MATCH","1","9","8","14","0.3","0.7","","0.35","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MULTIPLE_MATCH","1","10","8","14","0.3","0.7","","0.35","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MULTIPLE_MATCH","1","19","8","14","0.3","0.7","","0.35","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "2","CHECK_UNIQUE","5","5","3","14","0.3","0.7","0.000106734586425305","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "2","MATCH","5","6","3","14","0.3","0.7","0.000106734586425305","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "2","MULTIPLE_MATCH","5","7","3","14","0.3","0.7","","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "3","UNIQUE","8","8","1","14","0.3","0.7","9.53999059918256e-05","","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "4","CHECK_UNIQUE","11","11","7","14","0.3","0.7","0.000113260009207456","","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "4","MATCH","11","12","7","14","0.3","0.7","0.000113260009207456","1","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "4","MATCH","11","20","7","14","0.3","0.7","","0.6","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "4","MULTIPLE_MATCH","11","19","7","14","0.3","0.7","","0.55","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "4","MATCH","11","17","7","14","0.3","0.7","","0.4","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "4","MATCH","11","18","7","14","0.3","0.7","","0.4","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "4","MULTIPLE_MATCH","11","7","7","14","0.3","0.7","","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "5","CHECK_UNIQUE","13","13","4","14","0.3","0.7","6.04577149638958e-05","","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "5","MULTIPLE_MATCH","13","9","4","14","0.3","0.7","","0.4","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "5","MULTIPLE_MATCH","13","10","4","14","0.3","0.7","","0.4","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "5","MATCH","13","16","4","14","0.3","0.7","","0.4","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.7, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","3","","","14","0.3","0.7","","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "","UNCLASSIFIED","4","","","14","0.3","0.7","","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","CHECK_UNIQUE","1","1","8","14","0.3","0.7","0.00010119040879723","","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","1","2","8","14","0.3","0.7","0.00010119040879723","1","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MULTIPLE_MATCH","1","7","8","14","0.3","0.7","","0.4","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "1","MATCH","1","14","8","14","0.3","0.7","","0.4","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","MATCH","1","15","8","14","0.3","0.7","","0.4","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","MULTIPLE_MATCH","1","9","8","14","0.3","0.7","","0.35","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MULTIPLE_MATCH","1","10","8","14","0.3","0.7","","0.35","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MULTIPLE_MATCH","1","19","8","14","0.3","0.7","","0.35","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "2","CHECK_UNIQUE","5","5","3","14","0.3","0.7","0.000106734586425305","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "2","MATCH","5","6","3","14","0.3","0.7","0.000106734586425305","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "2","MULTIPLE_MATCH","5","7","3","14","0.3","0.7","","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "3","UNIQUE","8","8","1","14","0.3","0.7","9.53999059918256e-05","","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "4","CHECK_UNIQUE","11","11","7","14","0.3","0.7","0.000113260009207456","","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "4","MATCH","11","12","7","14","0.3","0.7","0.000113260009207456","1","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "4","MATCH","11","20","7","14","0.3","0.7","","0.6","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "4","MULTIPLE_MATCH","11","19","7","14","0.3","0.7","","0.55","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "4","MATCH","11","17","7","14","0.3","0.7","","0.4","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "4","MATCH","11","18","7","14","0.3","0.7","","0.4","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "4","MULTIPLE_MATCH","11","7","7","14","0.3","0.7","","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "5","CHECK_UNIQUE","13","13","4","14","0.3","0.7","6.04577149638958e-05","","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "5","MULTIPLE_MATCH","13","9","4","14","0.3","0.7","","0.4","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "5","MULTIPLE_MATCH","13","10","4","14","0.3","0.7","","0.4","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "5","MATCH","13","16","4","14","0.3","0.7","","0.4","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.7, doPsib="all", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","3","","","14","0.3","0.7","","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "","UNCLASSIFIED","4","","","14","0.3","0.7","","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","CHECK_UNIQUE","1","1","8","14","0.3","0.7","0.00010119040879723","","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","1","2","8","14","0.3","0.7","0.00010119040879723","1","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MULTIPLE_MATCH","1","7","8","14","0.3","0.7","1","0.4","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "1","MATCH","1","14","8","14","0.3","0.7","0.196425","0.4","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","MATCH","1","15","8","14","0.3","0.7","0.196425","0.4","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","MULTIPLE_MATCH","1","9","8","14","0.3","0.7","0.405","0.35","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MULTIPLE_MATCH","1","10","8","14","0.3","0.7","0.405","0.35","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MULTIPLE_MATCH","1","19","8","14","0.3","0.7","1","0.35","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "2","CHECK_UNIQUE","5","5","3","14","0.3","0.7","0.000106734586425305","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "2","MATCH","5","6","3","14","0.3","0.7","0.000106734586425305","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "2","MULTIPLE_MATCH","5","7","3","14","0.3","0.7","1","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "3","UNIQUE","8","8","1","14","0.3","0.7","9.53999059918256e-05","","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "4","CHECK_UNIQUE","11","11","7","14","0.3","0.7","0.000113260009207456","","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "4","MATCH","11","12","7","14","0.3","0.7","0.000113260009207456","1","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "4","MATCH","11","20","7","14","0.3","0.7","0.0301055015625","0.6","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "4","MULTIPLE_MATCH","11","19","7","14","0.3","0.7","0.0676528125","0.55","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "4","MATCH","11","17","7","14","0.3","0.7","0.305","0.4","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "4","MATCH","11","18","7","14","0.3","0.7","0.305","0.4","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "4","MULTIPLE_MATCH","11","7","7","14","0.3","0.7","0.1782","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "5","CHECK_UNIQUE","13","13","4","14","0.3","0.7","6.04577149638958e-05","","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "5","MULTIPLE_MATCH","13","9","4","14","0.3","0.7","0.053591625","0.4","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "5","MULTIPLE_MATCH","13","10","4","14","0.3","0.7","0.053591625","0.4","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "5","MATCH","13","16","4","14","0.3","0.7","0.052268375","0.4","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.7, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","3","","","14","0.3","0.7","","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "","UNCLASSIFIED","4","","","14","0.3","0.7","","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","CHECK_UNIQUE","1","1","8","14","0.3","0.7","0.00010119040879723","","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","1","2","8","14","0.3","0.7","0.00010119040879723","1","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MULTIPLE_MATCH","1","7","8","14","0.3","0.7","1","0.4","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "1","MATCH","1","14","8","14","0.3","0.7","0.196425","0.4","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","MATCH","1","15","8","14","0.3","0.7","0.196425","0.4","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","MULTIPLE_MATCH","1","9","8","14","0.3","0.7","0.405","0.35","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MULTIPLE_MATCH","1","10","8","14","0.3","0.7","0.405","0.35","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MULTIPLE_MATCH","1","19","8","14","0.3","0.7","1","0.35","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "2","CHECK_UNIQUE","5","5","3","14","0.3","0.7","0.000106734586425305","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "2","MATCH","5","6","3","14","0.3","0.7","0.000106734586425305","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "2","MULTIPLE_MATCH","5","7","3","14","0.3","0.7","1","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "3","UNIQUE","8","8","1","14","0.3","0.7","9.53999059918256e-05","","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "4","CHECK_UNIQUE","11","11","7","14","0.3","0.7","0.000113260009207456","","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "4","MATCH","11","12","7","14","0.3","0.7","0.000113260009207456","1","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "4","MATCH","11","20","7","14","0.3","0.7","0.0301055015625","0.6","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "4","MULTIPLE_MATCH","11","19","7","14","0.3","0.7","0.0676528125","0.55","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "4","MATCH","11","17","7","14","0.3","0.7","0.305","0.4","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "4","MATCH","11","18","7","14","0.3","0.7","0.305","0.4","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "4","MULTIPLE_MATCH","11","7","7","14","0.3","0.7","0.1782","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "5","CHECK_UNIQUE","13","13","4","14","0.3","0.7","6.04577149638958e-05","","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "5","MULTIPLE_MATCH","13","9","4","14","0.3","0.7","0.053591625","0.4","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "5","MULTIPLE_MATCH","13","10","4","14","0.3","0.7","0.053591625","0.4","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "5","MATCH","13","16","4","14","0.3","0.7","0.052268375","0.4","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.7, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","3","","","14","0.3","0.7","","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "","UNCLASSIFIED","4","","","14","0.3","0.7","","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","CHECK_UNIQUE","1","1","8","14","0.3","0.7","0.00010119040879723","","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","1","2","8","14","0.3","0.7","0.00010119040879723","1","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MULTIPLE_MATCH","1","7","8","14","0.3","0.7","1","0.4","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "1","MATCH","1","14","8","14","0.3","0.7","0.196425","0.4","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","MATCH","1","15","8","14","0.3","0.7","0.196425","0.4","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","MULTIPLE_MATCH","1","9","8","14","0.3","0.7","0.405","0.35","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MULTIPLE_MATCH","1","10","8","14","0.3","0.7","0.405","0.35","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MULTIPLE_MATCH","1","19","8","14","0.3","0.7","1","0.35","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "2","CHECK_UNIQUE","5","5","3","14","0.3","0.7","0.000106734586425305","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "2","MATCH","5","6","3","14","0.3","0.7","0.000106734586425305","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "2","MULTIPLE_MATCH","5","7","3","14","0.3","0.7","1","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "3","UNIQUE","8","8","1","14","0.3","0.7","9.53999059918256e-05","","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "4","CHECK_UNIQUE","11","11","7","14","0.3","0.7","0.000113260009207456","","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "4","MATCH","11","12","7","14","0.3","0.7","0.000113260009207456","1","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "4","MATCH","11","20","7","14","0.3","0.7","0.0301055015625","0.6","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "4","MULTIPLE_MATCH","11","19","7","14","0.3","0.7","0.0676528125","0.55","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "4","MATCH","11","17","7","14","0.3","0.7","0.305","0.4","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "4","MATCH","11","18","7","14","0.3","0.7","0.305","0.4","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "4","MULTIPLE_MATCH","11","7","7","14","0.3","0.7","0.1782","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "5","CHECK_UNIQUE","13","13","4","14","0.3","0.7","6.04577149638958e-05","","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "5","MULTIPLE_MATCH","13","9","4","14","0.3","0.7","0.053591625","0.4","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "5","MULTIPLE_MATCH","13","10","4","14","0.3","0.7","0.053591625","0.4","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "5","MATCH","13","16","4","14","0.3","0.7","0.052268375","0.4","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.7, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","3","","","14","0.3","0.7","","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "","UNCLASSIFIED","4","","","14","0.3","0.7","","","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","CHECK_UNIQUE","1","1","8","14","0.3","0.7","0.00010119040879723","","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","1","2","8","14","0.3","0.7","0.00010119040879723","1","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MULTIPLE_MATCH","1","7","8","14","0.3","0.7","1","0.4","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "1","MATCH","1","14","8","14","0.3","0.7","0.196425","0.4","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","MATCH","1","15","8","14","0.3","0.7","0.196425","0.4","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","MULTIPLE_MATCH","1","9","8","14","0.3","0.7","0.405","0.35","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MULTIPLE_MATCH","1","10","8","14","0.3","0.7","0.405","0.35","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MULTIPLE_MATCH","1","19","8","14","0.3","0.7","1","0.35","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "2","CHECK_UNIQUE","5","5","3","14","0.3","0.7","0.000106734586425305","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "2","MATCH","5","6","3","14","0.3","0.7","0.000106734586425305","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "2","MULTIPLE_MATCH","5","7","3","14","0.3","0.7","1","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "3","UNIQUE","8","8","1","14","0.3","0.7","9.53999059918256e-05","","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "4","CHECK_UNIQUE","11","11","7","14","0.3","0.7","0.000113260009207456","","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "4","MATCH","11","12","7","14","0.3","0.7","0.000113260009207456","1","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "4","MATCH","11","20","7","14","0.3","0.7","0.0301055015625","0.6","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "4","MULTIPLE_MATCH","11","19","7","14","0.3","0.7","0.0676528125","0.55","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "4","MATCH","11","17","7","14","0.3","0.7","0.305","0.4","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "4","MATCH","11","18","7","14","0.3","0.7","0.305","0.4","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "4","MULTIPLE_MATCH","11","7","7","14","0.3","0.7","0.1782","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "5","CHECK_UNIQUE","13","13","4","14","0.3","0.7","6.04577149638958e-05","","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "5","MULTIPLE_MATCH","13","9","4","14","0.3","0.7","0.053591625","0.4","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "5","MULTIPLE_MATCH","13","10","4","14","0.3","0.7","0.053591625","0.4","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "5","MATCH","13","16","4","14","0.3","0.7","0.052268375","0.4","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.9, doPsib="missing", consensusMethod=1)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  allelematch:  amCluster:  no clusters formed.  Please set cutHeight lower and run again. 
    Rejected :  amUnique(amdataExample1, cutHeight=0.9, doPsib="missing", consensusMethod=1)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.9, doPsib="missing", consensusMethod=2)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  allelematch:  amCluster:  no clusters formed.  Please set cutHeight lower and run again. 
    Rejected :  amUnique(amdataExample1, cutHeight=0.9, doPsib="missing", consensusMethod=2)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.9, doPsib="missing", consensusMethod=3)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  allelematch:  amCluster:  no clusters formed.  Please set cutHeight lower and run again. 
    Rejected :  amUnique(amdataExample1, cutHeight=0.9, doPsib="missing", consensusMethod=3)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.9, doPsib="missing", consensusMethod=4)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  allelematch:  amCluster:  no clusters formed.  Please set cutHeight lower and run again. 
    Rejected :  amUnique(amdataExample1, cutHeight=0.9, doPsib="missing", consensusMethod=4)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.9, doPsib="all", consensusMethod=1)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  allelematch:  amCluster:  no clusters formed.  Please set cutHeight lower and run again. 
    Rejected :  amUnique(amdataExample1, cutHeight=0.9, doPsib="all", consensusMethod=1)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.9, doPsib="all", consensusMethod=2)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  allelematch:  amCluster:  no clusters formed.  Please set cutHeight lower and run again. 
    Rejected :  amUnique(amdataExample1, cutHeight=0.9, doPsib="all", consensusMethod=2)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.9, doPsib="all", consensusMethod=3)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  allelematch:  amCluster:  no clusters formed.  Please set cutHeight lower and run again. 
    Rejected :  amUnique(amdataExample1, cutHeight=0.9, doPsib="all", consensusMethod=3)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.9, doPsib="all", consensusMethod=4)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  allelematch:  amCluster:  no clusters formed.  Please set cutHeight lower and run again. 
    Rejected :  amUnique(amdataExample1, cutHeight=0.9, doPsib="all", consensusMethod=4)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.95, doPsib="missing", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","14","","","19","0.05","0.95","","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "","UNCLASSIFIED","15","","","19","0.05","0.95","","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","UNIQUE","5","5","18","19","0.05","0.95","0.0596046447753906","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","6","18","19","0.05","0.95","0.0596046447753906","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","7","18","19","0.05","0.95","","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "1","MATCH","5","3","18","19","0.05","0.95","","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","4","18","19","0.05","0.95","","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","11","18","19","0.05","0.95","","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","12","18","19","0.05","0.95","","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","19","18","19","0.05","0.95","","0.25","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","20","18","19","0.05","0.95","","0.25","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","1","18","19","0.05","0.95","","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","2","18","19","0.05","0.95","","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","16","18","19","0.05","0.95","","0.15","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "1","MATCH","5","17","18","19","0.05","0.95","","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","18","18","19","0.05","0.95","","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","8","18","19","0.05","0.95","","0.1","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "1","MATCH","5","9","18","19","0.05","0.95","","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","10","18","19","0.05","0.95","","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","13","18","19","0.05","0.95","","0.1","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.95, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","14","","","19","0.05","0.95","","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "","UNCLASSIFIED","15","","","19","0.05","0.95","","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","UNIQUE","5","5","18","19","0.05","0.95","0.0596046447753906","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","6","18","19","0.05","0.95","0.0596046447753906","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","7","18","19","0.05","0.95","","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "1","MATCH","5","3","18","19","0.05","0.95","","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","4","18","19","0.05","0.95","","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","11","18","19","0.05","0.95","","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","12","18","19","0.05","0.95","","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","19","18","19","0.05","0.95","","0.25","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","20","18","19","0.05","0.95","","0.25","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","1","18","19","0.05","0.95","","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","2","18","19","0.05","0.95","","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","16","18","19","0.05","0.95","","0.15","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "1","MATCH","5","17","18","19","0.05","0.95","","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","18","18","19","0.05","0.95","","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","8","18","19","0.05","0.95","","0.1","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "1","MATCH","5","9","18","19","0.05","0.95","","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","10","18","19","0.05","0.95","","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","13","18","19","0.05","0.95","","0.1","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.95, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","14","","","19","0.05","0.95","","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "","UNCLASSIFIED","15","","","19","0.05","0.95","","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","UNIQUE","5","5","18","19","0.05","0.95","0.0596046447753906","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","6","18","19","0.05","0.95","0.0596046447753906","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","7","18","19","0.05","0.95","","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "1","MATCH","5","3","18","19","0.05","0.95","","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","4","18","19","0.05","0.95","","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","11","18","19","0.05","0.95","","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","12","18","19","0.05","0.95","","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","19","18","19","0.05","0.95","","0.25","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","20","18","19","0.05","0.95","","0.25","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","1","18","19","0.05","0.95","","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","2","18","19","0.05","0.95","","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","16","18","19","0.05","0.95","","0.15","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "1","MATCH","5","17","18","19","0.05","0.95","","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","18","18","19","0.05","0.95","","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","8","18","19","0.05","0.95","","0.1","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "1","MATCH","5","9","18","19","0.05","0.95","","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","10","18","19","0.05","0.95","","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","13","18","19","0.05","0.95","","0.1","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.95, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","14","","","19","0.05","0.95","","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "","UNCLASSIFIED","15","","","19","0.05","0.95","","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","UNIQUE","5","5","18","19","0.05","0.95","0.0596046447753906","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","6","18","19","0.05","0.95","0.0596046447753906","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","7","18","19","0.05","0.95","","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "1","MATCH","5","3","18","19","0.05","0.95","","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","4","18","19","0.05","0.95","","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","11","18","19","0.05","0.95","","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","12","18","19","0.05","0.95","","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","19","18","19","0.05","0.95","","0.25","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","20","18","19","0.05","0.95","","0.25","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","1","18","19","0.05","0.95","","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","2","18","19","0.05","0.95","","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","16","18","19","0.05","0.95","","0.15","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "1","MATCH","5","17","18","19","0.05","0.95","","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","18","18","19","0.05","0.95","","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","8","18","19","0.05","0.95","","0.1","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "1","MATCH","5","9","18","19","0.05","0.95","","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","10","18","19","0.05","0.95","","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","13","18","19","0.05","0.95","","0.1","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.95, doPsib="all", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","14","","","19","0.05","0.95","","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "","UNCLASSIFIED","15","","","19","0.05","0.95","","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","UNIQUE","5","5","18","19","0.05","0.95","0.0596046447753906","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","6","18","19","0.05","0.95","0.0596046447753906","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","7","18","19","0.05","0.95","1","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "1","MATCH","5","3","18","19","0.05","0.95","1","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","4","18","19","0.05","0.95","1","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","11","18","19","0.05","0.95","0.625","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","12","18","19","0.05","0.95","0.625","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","19","18","19","0.05","0.95","0.625","0.25","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","20","18","19","0.05","0.95","0.625","0.25","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","1","18","19","0.05","0.95","1","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","2","18","19","0.05","0.95","1","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","16","18","19","0.05","0.95","1","0.15","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "1","MATCH","5","17","18","19","0.05","0.95","0.625","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","18","18","19","0.05","0.95","0.625","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","8","18","19","0.05","0.95","1","0.1","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "1","MATCH","5","9","18","19","0.05","0.95","1","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","10","18","19","0.05","0.95","1","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","13","18","19","0.05","0.95","1","0.1","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.95, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","14","","","19","0.05","0.95","","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "","UNCLASSIFIED","15","","","19","0.05","0.95","","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","UNIQUE","5","5","18","19","0.05","0.95","0.0596046447753906","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","6","18","19","0.05","0.95","0.0596046447753906","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","7","18","19","0.05","0.95","1","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "1","MATCH","5","3","18","19","0.05","0.95","1","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","4","18","19","0.05","0.95","1","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","11","18","19","0.05","0.95","0.625","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","12","18","19","0.05","0.95","0.625","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","19","18","19","0.05","0.95","0.625","0.25","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","20","18","19","0.05","0.95","0.625","0.25","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","1","18","19","0.05","0.95","1","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","2","18","19","0.05","0.95","1","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","16","18","19","0.05","0.95","1","0.15","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "1","MATCH","5","17","18","19","0.05","0.95","0.625","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","18","18","19","0.05","0.95","0.625","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","8","18","19","0.05","0.95","1","0.1","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "1","MATCH","5","9","18","19","0.05","0.95","1","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","10","18","19","0.05","0.95","1","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","13","18","19","0.05","0.95","1","0.1","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.95, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","14","","","19","0.05","0.95","","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "","UNCLASSIFIED","15","","","19","0.05","0.95","","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","UNIQUE","5","5","18","19","0.05","0.95","0.0596046447753906","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","6","18","19","0.05","0.95","0.0596046447753906","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","7","18","19","0.05","0.95","1","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "1","MATCH","5","3","18","19","0.05","0.95","1","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","4","18","19","0.05","0.95","1","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","11","18","19","0.05","0.95","0.625","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","12","18","19","0.05","0.95","0.625","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","19","18","19","0.05","0.95","0.625","0.25","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","20","18","19","0.05","0.95","0.625","0.25","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","1","18","19","0.05","0.95","1","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","2","18","19","0.05","0.95","1","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","16","18","19","0.05","0.95","1","0.15","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "1","MATCH","5","17","18","19","0.05","0.95","0.625","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","18","18","19","0.05","0.95","0.625","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","8","18","19","0.05","0.95","1","0.1","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "1","MATCH","5","9","18","19","0.05","0.95","1","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","10","18","19","0.05","0.95","1","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","13","18","19","0.05","0.95","1","0.1","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.95, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","14","","","19","0.05","0.95","","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "","UNCLASSIFIED","15","","","19","0.05","0.95","","","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","UNIQUE","5","5","18","19","0.05","0.95","0.0596046447753906","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","6","18","19","0.05","0.95","0.0596046447753906","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","7","18","19","0.05","0.95","1","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "1","MATCH","5","3","18","19","0.05","0.95","1","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","4","18","19","0.05","0.95","1","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","11","18","19","0.05","0.95","0.625","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","12","18","19","0.05","0.95","0.625","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","19","18","19","0.05","0.95","0.625","0.25","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","20","18","19","0.05","0.95","0.625","0.25","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","1","18","19","0.05","0.95","1","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","2","18","19","0.05","0.95","1","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","16","18","19","0.05","0.95","1","0.15","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "1","MATCH","5","17","18","19","0.05","0.95","0.625","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","18","18","19","0.05","0.95","0.625","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","8","18","19","0.05","0.95","1","0.1","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "1","MATCH","5","9","18","19","0.05","0.95","1","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","10","18","19","0.05","0.95","1","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","13","18","19","0.05","0.95","1","0.1","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.99, doPsib="missing", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","5","5","20","19.8","0.01","0.99","0.0596046447753906","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","6","20","19.8","0.01","0.99","0.0596046447753906","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","7","20","19.8","0.01","0.99","","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "1","MATCH","5","3","20","19.8","0.01","0.99","","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","4","20","19.8","0.01","0.99","","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","11","20","19.8","0.01","0.99","","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","12","20","19.8","0.01","0.99","","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","19","20","19.8","0.01","0.99","","0.25","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","20","20","19.8","0.01","0.99","","0.25","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","1","20","19.8","0.01","0.99","","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","2","20","19.8","0.01","0.99","","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","16","20","19.8","0.01","0.99","","0.15","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "1","MATCH","5","17","20","19.8","0.01","0.99","","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","18","20","19.8","0.01","0.99","","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","8","20","19.8","0.01","0.99","","0.1","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "1","MATCH","5","9","20","19.8","0.01","0.99","","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","10","20","19.8","0.01","0.99","","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","13","20","19.8","0.01","0.99","","0.1","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "1","MATCH","5","14","20","19.8","0.01","0.99","","0.05","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","MATCH","5","15","20","19.8","0.01","0.99","","0.05","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.99, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","5","5","20","19.8","0.01","0.99","0.0596046447753906","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","6","20","19.8","0.01","0.99","0.0596046447753906","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","7","20","19.8","0.01","0.99","","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "1","MATCH","5","3","20","19.8","0.01","0.99","","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","4","20","19.8","0.01","0.99","","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","11","20","19.8","0.01","0.99","","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","12","20","19.8","0.01","0.99","","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","19","20","19.8","0.01","0.99","","0.25","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","20","20","19.8","0.01","0.99","","0.25","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","1","20","19.8","0.01","0.99","","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","2","20","19.8","0.01","0.99","","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","16","20","19.8","0.01","0.99","","0.15","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "1","MATCH","5","17","20","19.8","0.01","0.99","","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","18","20","19.8","0.01","0.99","","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","8","20","19.8","0.01","0.99","","0.1","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "1","MATCH","5","9","20","19.8","0.01","0.99","","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","10","20","19.8","0.01","0.99","","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","13","20","19.8","0.01","0.99","","0.1","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "1","MATCH","5","14","20","19.8","0.01","0.99","","0.05","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","MATCH","5","15","20","19.8","0.01","0.99","","0.05","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.99, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","5","5","20","19.8","0.01","0.99","0.0596046447753906","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","6","20","19.8","0.01","0.99","0.0596046447753906","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","7","20","19.8","0.01","0.99","","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "1","MATCH","5","3","20","19.8","0.01","0.99","","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","4","20","19.8","0.01","0.99","","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","11","20","19.8","0.01","0.99","","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","12","20","19.8","0.01","0.99","","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","19","20","19.8","0.01","0.99","","0.25","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","20","20","19.8","0.01","0.99","","0.25","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","1","20","19.8","0.01","0.99","","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","2","20","19.8","0.01","0.99","","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","16","20","19.8","0.01","0.99","","0.15","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "1","MATCH","5","17","20","19.8","0.01","0.99","","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","18","20","19.8","0.01","0.99","","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","8","20","19.8","0.01","0.99","","0.1","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "1","MATCH","5","9","20","19.8","0.01","0.99","","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","10","20","19.8","0.01","0.99","","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","13","20","19.8","0.01","0.99","","0.1","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "1","MATCH","5","14","20","19.8","0.01","0.99","","0.05","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","MATCH","5","15","20","19.8","0.01","0.99","","0.05","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.99, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","5","5","20","19.8","0.01","0.99","0.0596046447753906","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","6","20","19.8","0.01","0.99","0.0596046447753906","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","7","20","19.8","0.01","0.99","","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "1","MATCH","5","3","20","19.8","0.01","0.99","","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","4","20","19.8","0.01","0.99","","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","11","20","19.8","0.01","0.99","","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","12","20","19.8","0.01","0.99","","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","19","20","19.8","0.01","0.99","","0.25","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","20","20","19.8","0.01","0.99","","0.25","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","1","20","19.8","0.01","0.99","","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","2","20","19.8","0.01","0.99","","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","16","20","19.8","0.01","0.99","","0.15","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "1","MATCH","5","17","20","19.8","0.01","0.99","","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","18","20","19.8","0.01","0.99","","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","8","20","19.8","0.01","0.99","","0.1","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "1","MATCH","5","9","20","19.8","0.01","0.99","","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","10","20","19.8","0.01","0.99","","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","13","20","19.8","0.01","0.99","","0.1","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "1","MATCH","5","14","20","19.8","0.01","0.99","","0.05","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","MATCH","5","15","20","19.8","0.01","0.99","","0.05","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.99, doPsib="all", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","5","5","20","19.8","0.01","0.99","0.0596046447753906","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","6","20","19.8","0.01","0.99","0.0596046447753906","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","7","20","19.8","0.01","0.99","1","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "1","MATCH","5","3","20","19.8","0.01","0.99","1","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","4","20","19.8","0.01","0.99","1","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","11","20","19.8","0.01","0.99","0.625","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","12","20","19.8","0.01","0.99","0.625","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","19","20","19.8","0.01","0.99","0.625","0.25","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","20","20","19.8","0.01","0.99","0.625","0.25","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","1","20","19.8","0.01","0.99","1","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","2","20","19.8","0.01","0.99","1","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","16","20","19.8","0.01","0.99","1","0.15","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "1","MATCH","5","17","20","19.8","0.01","0.99","0.625","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","18","20","19.8","0.01","0.99","0.625","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","8","20","19.8","0.01","0.99","1","0.1","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "1","MATCH","5","9","20","19.8","0.01","0.99","1","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","10","20","19.8","0.01","0.99","1","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","13","20","19.8","0.01","0.99","1","0.1","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "1","MATCH","5","14","20","19.8","0.01","0.99","1","0.05","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","MATCH","5","15","20","19.8","0.01","0.99","1","0.05","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.99, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","5","5","20","19.8","0.01","0.99","0.0596046447753906","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","6","20","19.8","0.01","0.99","0.0596046447753906","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","7","20","19.8","0.01","0.99","1","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "1","MATCH","5","3","20","19.8","0.01","0.99","1","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","4","20","19.8","0.01","0.99","1","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","11","20","19.8","0.01","0.99","0.625","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","12","20","19.8","0.01","0.99","0.625","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","19","20","19.8","0.01","0.99","0.625","0.25","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","20","20","19.8","0.01","0.99","0.625","0.25","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","1","20","19.8","0.01","0.99","1","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","2","20","19.8","0.01","0.99","1","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","16","20","19.8","0.01","0.99","1","0.15","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "1","MATCH","5","17","20","19.8","0.01","0.99","0.625","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","18","20","19.8","0.01","0.99","0.625","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","8","20","19.8","0.01","0.99","1","0.1","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "1","MATCH","5","9","20","19.8","0.01","0.99","1","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","10","20","19.8","0.01","0.99","1","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","13","20","19.8","0.01","0.99","1","0.1","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "1","MATCH","5","14","20","19.8","0.01","0.99","1","0.05","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","MATCH","5","15","20","19.8","0.01","0.99","1","0.05","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.99, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","5","5","20","19.8","0.01","0.99","0.0596046447753906","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","6","20","19.8","0.01","0.99","0.0596046447753906","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","7","20","19.8","0.01","0.99","1","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "1","MATCH","5","3","20","19.8","0.01","0.99","1","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","4","20","19.8","0.01","0.99","1","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","11","20","19.8","0.01","0.99","0.625","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","12","20","19.8","0.01","0.99","0.625","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","19","20","19.8","0.01","0.99","0.625","0.25","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","20","20","19.8","0.01","0.99","0.625","0.25","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","1","20","19.8","0.01","0.99","1","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","2","20","19.8","0.01","0.99","1","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","16","20","19.8","0.01","0.99","1","0.15","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "1","MATCH","5","17","20","19.8","0.01","0.99","0.625","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","18","20","19.8","0.01","0.99","0.625","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","8","20","19.8","0.01","0.99","1","0.1","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "1","MATCH","5","9","20","19.8","0.01","0.99","1","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","10","20","19.8","0.01","0.99","1","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","13","20","19.8","0.01","0.99","1","0.1","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "1","MATCH","5","14","20","19.8","0.01","0.99","1","0.05","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","MATCH","5","15","20","19.8","0.01","0.99","1","0.05","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=0.99, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","5","5","20","19.8","0.01","0.99","0.0596046447753906","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","6","20","19.8","0.01","0.99","0.0596046447753906","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","7","20","19.8","0.01","0.99","1","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "1","MATCH","5","3","20","19.8","0.01","0.99","1","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","4","20","19.8","0.01","0.99","1","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","11","20","19.8","0.01","0.99","0.625","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","12","20","19.8","0.01","0.99","0.625","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","19","20","19.8","0.01","0.99","0.625","0.25","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","20","20","19.8","0.01","0.99","0.625","0.25","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","1","20","19.8","0.01","0.99","1","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","2","20","19.8","0.01","0.99","1","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","16","20","19.8","0.01","0.99","1","0.15","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "1","MATCH","5","17","20","19.8","0.01","0.99","0.625","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","18","20","19.8","0.01","0.99","0.625","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","8","20","19.8","0.01","0.99","1","0.1","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "1","MATCH","5","9","20","19.8","0.01","0.99","1","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","10","20","19.8","0.01","0.99","1","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","13","20","19.8","0.01","0.99","1","0.1","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "1","MATCH","5","14","20","19.8","0.01","0.99","1","0.05","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","MATCH","5","15","20","19.8","0.01","0.99","1","0.05","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=1, doPsib="missing", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","5","5","20","20","0","1","0.0596046447753906","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","6","20","20","0","1","0.0596046447753906","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","7","20","20","0","1","","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "1","MATCH","5","3","20","20","0","1","","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","4","20","20","0","1","","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","11","20","20","0","1","","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","12","20","20","0","1","","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","19","20","20","0","1","","0.25","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","20","20","20","0","1","","0.25","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","1","20","20","0","1","","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","2","20","20","0","1","","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","16","20","20","0","1","","0.15","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "1","MATCH","5","17","20","20","0","1","","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","18","20","20","0","1","","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","8","20","20","0","1","","0.1","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "1","MATCH","5","9","20","20","0","1","","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","10","20","20","0","1","","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","13","20","20","0","1","","0.1","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "1","MATCH","5","14","20","20","0","1","","0.05","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","MATCH","5","15","20","20","0","1","","0.05","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=1, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","5","5","20","20","0","1","0.0596046447753906","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","6","20","20","0","1","0.0596046447753906","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","7","20","20","0","1","","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "1","MATCH","5","3","20","20","0","1","","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","4","20","20","0","1","","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","11","20","20","0","1","","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","12","20","20","0","1","","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","19","20","20","0","1","","0.25","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","20","20","20","0","1","","0.25","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","1","20","20","0","1","","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","2","20","20","0","1","","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","16","20","20","0","1","","0.15","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "1","MATCH","5","17","20","20","0","1","","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","18","20","20","0","1","","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","8","20","20","0","1","","0.1","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "1","MATCH","5","9","20","20","0","1","","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","10","20","20","0","1","","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","13","20","20","0","1","","0.1","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "1","MATCH","5","14","20","20","0","1","","0.05","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","MATCH","5","15","20","20","0","1","","0.05","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=1, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","5","5","20","20","0","1","0.0596046447753906","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","6","20","20","0","1","0.0596046447753906","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","7","20","20","0","1","","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "1","MATCH","5","3","20","20","0","1","","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","4","20","20","0","1","","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","11","20","20","0","1","","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","12","20","20","0","1","","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","19","20","20","0","1","","0.25","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","20","20","20","0","1","","0.25","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","1","20","20","0","1","","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","2","20","20","0","1","","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","16","20","20","0","1","","0.15","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "1","MATCH","5","17","20","20","0","1","","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","18","20","20","0","1","","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","8","20","20","0","1","","0.1","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "1","MATCH","5","9","20","20","0","1","","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","10","20","20","0","1","","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","13","20","20","0","1","","0.1","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "1","MATCH","5","14","20","20","0","1","","0.05","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","MATCH","5","15","20","20","0","1","","0.05","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=1, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","5","5","20","20","0","1","0.0596046447753906","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","6","20","20","0","1","0.0596046447753906","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","7","20","20","0","1","","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "1","MATCH","5","3","20","20","0","1","","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","4","20","20","0","1","","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","11","20","20","0","1","","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","12","20","20","0","1","","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","19","20","20","0","1","","0.25","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","20","20","20","0","1","","0.25","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","1","20","20","0","1","","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","2","20","20","0","1","","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","16","20","20","0","1","","0.15","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "1","MATCH","5","17","20","20","0","1","","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","18","20","20","0","1","","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","8","20","20","0","1","","0.1","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "1","MATCH","5","9","20","20","0","1","","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","10","20","20","0","1","","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","13","20","20","0","1","","0.1","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "1","MATCH","5","14","20","20","0","1","","0.05","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","MATCH","5","15","20","20","0","1","","0.05","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=1, doPsib="all", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","5","5","20","20","0","1","0.0596046447753906","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","6","20","20","0","1","0.0596046447753906","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","7","20","20","0","1","1","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "1","MATCH","5","3","20","20","0","1","1","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","4","20","20","0","1","1","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","11","20","20","0","1","0.625","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","12","20","20","0","1","0.625","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","19","20","20","0","1","0.625","0.25","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","20","20","20","0","1","0.625","0.25","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","1","20","20","0","1","1","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","2","20","20","0","1","1","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","16","20","20","0","1","1","0.15","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "1","MATCH","5","17","20","20","0","1","0.625","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","18","20","20","0","1","0.625","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","8","20","20","0","1","1","0.1","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "1","MATCH","5","9","20","20","0","1","1","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","10","20","20","0","1","1","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","13","20","20","0","1","1","0.1","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "1","MATCH","5","14","20","20","0","1","1","0.05","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","MATCH","5","15","20","20","0","1","1","0.05","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=1, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","5","5","20","20","0","1","0.0596046447753906","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","6","20","20","0","1","0.0596046447753906","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","7","20","20","0","1","1","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "1","MATCH","5","3","20","20","0","1","1","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","4","20","20","0","1","1","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","11","20","20","0","1","0.625","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","12","20","20","0","1","0.625","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","19","20","20","0","1","0.625","0.25","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","20","20","20","0","1","0.625","0.25","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","1","20","20","0","1","1","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","2","20","20","0","1","1","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","16","20","20","0","1","1","0.15","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "1","MATCH","5","17","20","20","0","1","0.625","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","18","20","20","0","1","0.625","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","8","20","20","0","1","1","0.1","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "1","MATCH","5","9","20","20","0","1","1","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","10","20","20","0","1","1","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","13","20","20","0","1","1","0.1","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "1","MATCH","5","14","20","20","0","1","1","0.05","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","MATCH","5","15","20","20","0","1","1","0.05","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=1, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","5","5","20","20","0","1","0.0596046447753906","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","6","20","20","0","1","0.0596046447753906","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","7","20","20","0","1","1","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "1","MATCH","5","3","20","20","0","1","1","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","4","20","20","0","1","1","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","11","20","20","0","1","0.625","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","12","20","20","0","1","0.625","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","19","20","20","0","1","0.625","0.25","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","20","20","20","0","1","0.625","0.25","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","1","20","20","0","1","1","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","2","20","20","0","1","1","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","16","20","20","0","1","1","0.15","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "1","MATCH","5","17","20","20","0","1","0.625","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","18","20","20","0","1","0.625","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","8","20","20","0","1","1","0.1","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "1","MATCH","5","9","20","20","0","1","1","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","10","20","20","0","1","1","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","13","20","20","0","1","1","0.1","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "1","MATCH","5","14","20","20","0","1","1","0.05","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","MATCH","5","15","20","20","0","1","1","0.05","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample1, cutHeight=1, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","5","5","20","20","0","1","0.0596046447753906","","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","6","20","20","0","1","0.0596046447753906","1","AAC","103","109","201","209","306","306","408","414","501","502","603","607","706","706","804","804","914","918","1006","1006"
  "1","MATCH","5","7","20","20","0","1","1","0.35","AAD","108","109","201","208","314","314","404","417","501","514","607","618","706","715","804","811","914","914","1006","1015"
  "1","MATCH","5","3","20","20","0","1","1","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","4","20","20","0","1","1","0.25","AAB","104","120","201","208","306","314","407","407","502","502","607","616","713","715","804","816","912","914","1006","1015"
  "1","MATCH","5","11","20","20","0","1","0.625","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","12","20","20","0","1","0.625","0.25","AAG","108","109","201","208","306","317","404","413","502","514","603","607","703","719","812","816","911","911","1015","1015"
  "1","MATCH","5","19","20","20","0","1","0.625","0.25","AAL","108","114","201","207","-99","-99","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","20","20","20","0","1","0.625","0.25","AAL","108","114","201","207","306","317","404","413","502","519","603","607","712","715","804","811","911","911","1015","1018"
  "1","MATCH","5","1","20","20","0","1","1","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","2","20","20","0","1","1","0.2","AAA","103","108","201","201","314","318","405","417","514","519","603","618","709","715","804","816","911","914","1007","1015"
  "1","MATCH","5","16","20","20","0","1","1","0.15","AAJ","108","109","203","203","317","318","407","417","505","519","607","616","712","715","804","812","914","915","1015","1015"
  "1","MATCH","5","17","20","20","0","1","0.625","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","18","20","20","0","1","0.625","0.15","AAK","103","109","208","208","306","307","404","413","502","519","602","603","709","717","816","816","911","914","1005","1007"
  "1","MATCH","5","8","20","20","0","1","1","0.1","AAE","104","110","207","208","307","317","417","417","516","516","603","603","717","719","804","812","907","914","1007","1019"
  "1","MATCH","5","9","20","20","0","1","1","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","10","20","20","0","1","1","0.1","AAF","109","120","208","208","307","307","407","417","505","519","607","618","703","709","804","805","914","914","1007","1015"
  "1","MATCH","5","13","20","20","0","1","1","0.1","AAH","109","110","203","207","313","317","407","417","505","519","607","618","706","719","811","811","914","915","1018","1018"
  "1","MATCH","5","14","20","20","0","1","1","0.05","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"
  "1","MATCH","5","15","20","20","0","1","1","0.05","AAI","108","120","208","209","307","313","417","417","502","516","602","618","703","715","811","816","911","914","1007","1015"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0, doPsib="missing", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","0","1","1e-05","0.000145396677937851","","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "2","UNIQUE","2","2","1","0","1","1e-05","0.000103698597780538","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "3","UNIQUE","3","3","1","0","1","1e-05","0.000113513479929241","","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "4","UNIQUE","4","4","2","0","1","1e-05","0.000117240364746332","","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "4","MATCH","4","5","2","0","1","1e-05","0.000117240364746332","1","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "5","UNIQUE","6","6","1","0","1","1e-05","0.000155694611437429","","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "6","UNIQUE","7","7","1","0","1","1e-05","4.71151083779302e-05","","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "7","UNIQUE","8","8","1","0","1","1e-05","5.1968098944716e-05","","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "8","UNIQUE","9","9","1","0","1","1e-05","6.95159541216879e-05","","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "9","UNIQUE","10","10","1","0","1","1e-05","0.000131238668861613","","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "10","UNIQUE","11","11","1","0","1","1e-05","8.52147838017168e-05","","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "11","UNIQUE","12","12","1","0","1","1e-05","0.000122822158995514","","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "12","UNIQUE","13","13","1","0","1","1e-05","0.000115648874858142","","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "13","UNIQUE","14","14","1","0","1","1e-05","0.000259618691216911","","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "14","UNIQUE","15","15","1","0","1","1e-05","0.000113302447853747","","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "15","UNIQUE","16","16","1","0","1","1e-05","0.000215379520230338","","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "16","UNIQUE","17","17","1","0","1","1e-05","6.98518227001889e-05","","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "17","UNIQUE","18","18","1","0","1","1e-05","8.61349055124196e-05","","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "18","UNIQUE","19","19","1","0","1","1e-05","4.33801793533373e-05","","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "19","UNIQUE","20","20","1","0","1","1e-05","0.000118765181873925","","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","0","1","1e-05","0.000145396677937851","","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "2","UNIQUE","2","2","1","0","1","1e-05","0.000103698597780538","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "3","UNIQUE","3","3","1","0","1","1e-05","0.000113513479929241","","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "4","UNIQUE","4","4","2","0","1","1e-05","0.000117240364746332","","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "4","MATCH","4","5","2","0","1","1e-05","0.000117240364746332","1","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "5","UNIQUE","6","6","1","0","1","1e-05","0.000155694611437429","","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "6","UNIQUE","7","7","1","0","1","1e-05","4.71151083779302e-05","","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "7","UNIQUE","8","8","1","0","1","1e-05","5.1968098944716e-05","","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "8","UNIQUE","9","9","1","0","1","1e-05","6.95159541216879e-05","","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "9","UNIQUE","10","10","1","0","1","1e-05","0.000131238668861613","","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "10","UNIQUE","11","11","1","0","1","1e-05","8.52147838017168e-05","","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "11","UNIQUE","12","12","1","0","1","1e-05","0.000122822158995514","","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "12","UNIQUE","13","13","1","0","1","1e-05","0.000115648874858142","","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "13","UNIQUE","14","14","1","0","1","1e-05","0.000259618691216911","","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "14","UNIQUE","15","15","1","0","1","1e-05","0.000113302447853747","","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "15","UNIQUE","16","16","1","0","1","1e-05","0.000215379520230338","","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "16","UNIQUE","17","17","1","0","1","1e-05","6.98518227001889e-05","","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "17","UNIQUE","18","18","1","0","1","1e-05","8.61349055124196e-05","","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "18","UNIQUE","19","19","1","0","1","1e-05","4.33801793533373e-05","","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "19","UNIQUE","20","20","1","0","1","1e-05","0.000118765181873925","","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","0","1","1e-05","0.000145396677937851","","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "2","UNIQUE","2","2","1","0","1","1e-05","0.000103698597780538","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "3","UNIQUE","3","3","1","0","1","1e-05","0.000113513479929241","","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "4","UNIQUE","4","4","2","0","1","1e-05","0.000117240364746332","","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "4","MATCH","4","5","2","0","1","1e-05","0.000117240364746332","1","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "5","UNIQUE","6","6","1","0","1","1e-05","0.000155694611437429","","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "6","UNIQUE","7","7","1","0","1","1e-05","4.71151083779302e-05","","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "7","UNIQUE","8","8","1","0","1","1e-05","5.1968098944716e-05","","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "8","UNIQUE","9","9","1","0","1","1e-05","6.95159541216879e-05","","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "9","UNIQUE","10","10","1","0","1","1e-05","0.000131238668861613","","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "10","UNIQUE","11","11","1","0","1","1e-05","8.52147838017168e-05","","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "11","UNIQUE","12","12","1","0","1","1e-05","0.000122822158995514","","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "12","UNIQUE","13","13","1","0","1","1e-05","0.000115648874858142","","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "13","UNIQUE","14","14","1","0","1","1e-05","0.000259618691216911","","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "14","UNIQUE","15","15","1","0","1","1e-05","0.000113302447853747","","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "15","UNIQUE","16","16","1","0","1","1e-05","0.000215379520230338","","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "16","UNIQUE","17","17","1","0","1","1e-05","6.98518227001889e-05","","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "17","UNIQUE","18","18","1","0","1","1e-05","8.61349055124196e-05","","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "18","UNIQUE","19","19","1","0","1","1e-05","4.33801793533373e-05","","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "19","UNIQUE","20","20","1","0","1","1e-05","0.000118765181873925","","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","0","1","1e-05","0.000145396677937851","","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "2","UNIQUE","2","2","1","0","1","1e-05","0.000103698597780538","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "3","UNIQUE","3","3","1","0","1","1e-05","0.000113513479929241","","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "4","UNIQUE","4","4","2","0","1","1e-05","0.000117240364746332","","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "4","MATCH","4","5","2","0","1","1e-05","0.000117240364746332","1","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "5","UNIQUE","6","6","1","0","1","1e-05","0.000155694611437429","","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "6","UNIQUE","7","7","1","0","1","1e-05","4.71151083779302e-05","","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "7","UNIQUE","8","8","1","0","1","1e-05","5.1968098944716e-05","","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "8","UNIQUE","9","9","1","0","1","1e-05","6.95159541216879e-05","","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "9","UNIQUE","10","10","1","0","1","1e-05","0.000131238668861613","","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "10","UNIQUE","11","11","1","0","1","1e-05","8.52147838017168e-05","","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "11","UNIQUE","12","12","1","0","1","1e-05","0.000122822158995514","","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "12","UNIQUE","13","13","1","0","1","1e-05","0.000115648874858142","","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "13","UNIQUE","14","14","1","0","1","1e-05","0.000259618691216911","","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "14","UNIQUE","15","15","1","0","1","1e-05","0.000113302447853747","","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "15","UNIQUE","16","16","1","0","1","1e-05","0.000215379520230338","","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "16","UNIQUE","17","17","1","0","1","1e-05","6.98518227001889e-05","","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "17","UNIQUE","18","18","1","0","1","1e-05","8.61349055124196e-05","","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "18","UNIQUE","19","19","1","0","1","1e-05","4.33801793533373e-05","","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "19","UNIQUE","20","20","1","0","1","1e-05","0.000118765181873925","","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0, doPsib="all", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","0","1","1e-05","0.000145396677937851","","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "2","UNIQUE","2","2","1","0","1","1e-05","0.000103698597780538","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "3","UNIQUE","3","3","1","0","1","1e-05","0.000113513479929241","","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "4","UNIQUE","4","4","2","0","1","1e-05","0.000117240364746332","","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "4","MATCH","4","5","2","0","1","1e-05","0.000117240364746332","1","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "5","UNIQUE","6","6","1","0","1","1e-05","0.000155694611437429","","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "6","UNIQUE","7","7","1","0","1","1e-05","4.71151083779302e-05","","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "7","UNIQUE","8","8","1","0","1","1e-05","5.1968098944716e-05","","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "8","UNIQUE","9","9","1","0","1","1e-05","6.95159541216879e-05","","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "9","UNIQUE","10","10","1","0","1","1e-05","0.000131238668861613","","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "10","UNIQUE","11","11","1","0","1","1e-05","8.52147838017168e-05","","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "11","UNIQUE","12","12","1","0","1","1e-05","0.000122822158995514","","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "12","UNIQUE","13","13","1","0","1","1e-05","0.000115648874858142","","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "13","UNIQUE","14","14","1","0","1","1e-05","0.000259618691216911","","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "14","UNIQUE","15","15","1","0","1","1e-05","0.000113302447853747","","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "15","UNIQUE","16","16","1","0","1","1e-05","0.000215379520230338","","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "16","UNIQUE","17","17","1","0","1","1e-05","6.98518227001889e-05","","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "17","UNIQUE","18","18","1","0","1","1e-05","8.61349055124196e-05","","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "18","UNIQUE","19","19","1","0","1","1e-05","4.33801793533373e-05","","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "19","UNIQUE","20","20","1","0","1","1e-05","0.000118765181873925","","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","0","1","1e-05","0.000145396677937851","","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "2","UNIQUE","2","2","1","0","1","1e-05","0.000103698597780538","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "3","UNIQUE","3","3","1","0","1","1e-05","0.000113513479929241","","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "4","UNIQUE","4","4","2","0","1","1e-05","0.000117240364746332","","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "4","MATCH","4","5","2","0","1","1e-05","0.000117240364746332","1","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "5","UNIQUE","6","6","1","0","1","1e-05","0.000155694611437429","","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "6","UNIQUE","7","7","1","0","1","1e-05","4.71151083779302e-05","","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "7","UNIQUE","8","8","1","0","1","1e-05","5.1968098944716e-05","","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "8","UNIQUE","9","9","1","0","1","1e-05","6.95159541216879e-05","","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "9","UNIQUE","10","10","1","0","1","1e-05","0.000131238668861613","","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "10","UNIQUE","11","11","1","0","1","1e-05","8.52147838017168e-05","","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "11","UNIQUE","12","12","1","0","1","1e-05","0.000122822158995514","","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "12","UNIQUE","13","13","1","0","1","1e-05","0.000115648874858142","","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "13","UNIQUE","14","14","1","0","1","1e-05","0.000259618691216911","","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "14","UNIQUE","15","15","1","0","1","1e-05","0.000113302447853747","","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "15","UNIQUE","16","16","1","0","1","1e-05","0.000215379520230338","","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "16","UNIQUE","17","17","1","0","1","1e-05","6.98518227001889e-05","","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "17","UNIQUE","18","18","1","0","1","1e-05","8.61349055124196e-05","","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "18","UNIQUE","19","19","1","0","1","1e-05","4.33801793533373e-05","","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "19","UNIQUE","20","20","1","0","1","1e-05","0.000118765181873925","","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","0","1","1e-05","0.000145396677937851","","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "2","UNIQUE","2","2","1","0","1","1e-05","0.000103698597780538","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "3","UNIQUE","3","3","1","0","1","1e-05","0.000113513479929241","","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "4","UNIQUE","4","4","2","0","1","1e-05","0.000117240364746332","","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "4","MATCH","4","5","2","0","1","1e-05","0.000117240364746332","1","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "5","UNIQUE","6","6","1","0","1","1e-05","0.000155694611437429","","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "6","UNIQUE","7","7","1","0","1","1e-05","4.71151083779302e-05","","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "7","UNIQUE","8","8","1","0","1","1e-05","5.1968098944716e-05","","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "8","UNIQUE","9","9","1","0","1","1e-05","6.95159541216879e-05","","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "9","UNIQUE","10","10","1","0","1","1e-05","0.000131238668861613","","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "10","UNIQUE","11","11","1","0","1","1e-05","8.52147838017168e-05","","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "11","UNIQUE","12","12","1","0","1","1e-05","0.000122822158995514","","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "12","UNIQUE","13","13","1","0","1","1e-05","0.000115648874858142","","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "13","UNIQUE","14","14","1","0","1","1e-05","0.000259618691216911","","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "14","UNIQUE","15","15","1","0","1","1e-05","0.000113302447853747","","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "15","UNIQUE","16","16","1","0","1","1e-05","0.000215379520230338","","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "16","UNIQUE","17","17","1","0","1","1e-05","6.98518227001889e-05","","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "17","UNIQUE","18","18","1","0","1","1e-05","8.61349055124196e-05","","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "18","UNIQUE","19","19","1","0","1","1e-05","4.33801793533373e-05","","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "19","UNIQUE","20","20","1","0","1","1e-05","0.000118765181873925","","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","0","1","1e-05","0.000145396677937851","","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "2","UNIQUE","2","2","1","0","1","1e-05","0.000103698597780538","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "3","UNIQUE","3","3","1","0","1","1e-05","0.000113513479929241","","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "4","UNIQUE","4","4","2","0","1","1e-05","0.000117240364746332","","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "4","MATCH","4","5","2","0","1","1e-05","0.000117240364746332","1","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "5","UNIQUE","6","6","1","0","1","1e-05","0.000155694611437429","","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "6","UNIQUE","7","7","1","0","1","1e-05","4.71151083779302e-05","","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "7","UNIQUE","8","8","1","0","1","1e-05","5.1968098944716e-05","","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "8","UNIQUE","9","9","1","0","1","1e-05","6.95159541216879e-05","","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "9","UNIQUE","10","10","1","0","1","1e-05","0.000131238668861613","","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "10","UNIQUE","11","11","1","0","1","1e-05","8.52147838017168e-05","","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "11","UNIQUE","12","12","1","0","1","1e-05","0.000122822158995514","","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "12","UNIQUE","13","13","1","0","1","1e-05","0.000115648874858142","","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "13","UNIQUE","14","14","1","0","1","1e-05","0.000259618691216911","","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "14","UNIQUE","15","15","1","0","1","1e-05","0.000113302447853747","","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "15","UNIQUE","16","16","1","0","1","1e-05","0.000215379520230338","","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "16","UNIQUE","17","17","1","0","1","1e-05","6.98518227001889e-05","","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "17","UNIQUE","18","18","1","0","1","1e-05","8.61349055124196e-05","","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "18","UNIQUE","19","19","1","0","1","1e-05","4.33801793533373e-05","","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "19","UNIQUE","20","20","1","0","1","1e-05","0.000118765181873925","","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.3, doPsib="missing", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","6","0.7","0.3","0.000142298340751996","","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "2","UNIQUE","2","2","2","6","0.7","0.3","7.62693916110991e-05","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "2","MATCH","2","3","2","6","0.7","0.3","","0.95","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "3","UNIQUE","4","4","3","6","0.7","0.3","9.30873850323771e-05","","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "3","MATCH","4","5","3","6","0.7","0.3","9.30873850323771e-05","1","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "3","MATCH","4","6","3","6","0.7","0.3","","0.9","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "4","UNIQUE","7","7","1","6","0.7","0.3","5.46901144978401e-05","","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "5","UNIQUE","8","8","1","6","0.7","0.3","6.29177702955718e-05","","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "6","UNIQUE","9","9","1","6","0.7","0.3","7.21654645588769e-05","","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "7","UNIQUE","10","10","1","6","0.7","0.3","0.000133522310839347","","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "8","UNIQUE","11","11","1","6","0.7","0.3","9.73623691186428e-05","","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "9","UNIQUE","12","12","2","6","0.7","0.3","9.93494912015406e-05","","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "9","MATCH","12","13","2","6","0.7","0.3","","0.9","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "10","UNIQUE","14","14","2","6","0.7","0.3","0.000213968558406211","","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "10","MATCH","14","15","2","6","0.7","0.3","0.000213968558406211","0.95","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "11","UNIQUE","16","16","2","6","0.7","0.3","0.000183826302424934","","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "11","MATCH","16","17","2","6","0.7","0.3","","0.9","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "12","UNIQUE","18","18","1","6","0.7","0.3","0.000107539220998863","","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "13","UNIQUE","19","19","1","6","0.7","0.3","5.76033606349005e-05","","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "14","UNIQUE","20","20","1","6","0.7","0.3","0.00012306111380268","","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.3, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","6","0.7","0.3","0.000139660312624641","","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "2","UNIQUE","2","2","2","6","0.7","0.3","7.87383515084324e-05","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "2","MATCH","2","3","2","6","0.7","0.3","","0.95","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "3","UNIQUE","4","4","3","6","0.7","0.3","9.08314407522557e-05","","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "3","MATCH","4","5","3","6","0.7","0.3","9.08314407522557e-05","1","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "3","MATCH","4","6","3","6","0.7","0.3","","0.9","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "4","UNIQUE","7","7","1","6","0.7","0.3","5.64605193302825e-05","","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "5","UNIQUE","8","8","1","6","0.7","0.3","6.04120936561062e-05","","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "6","UNIQUE","9","9","1","6","0.7","0.3","7.45015738971657e-05","","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "7","UNIQUE","10","10","1","6","0.7","0.3","0.000131046979013536","","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "8","UNIQUE","11","11","1","6","0.7","0.3","9.50028219078593e-05","","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "9","UNIQUE","12","12","2","6","0.7","0.3","0.000102565590142618","","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "9","MATCH","12","13","2","6","0.7","0.3","","0.9","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "10","UNIQUE","14","14","2","6","0.7","0.3","8.89716199495214e-05","","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "10","MATCH","14","15","2","6","0.7","0.3","8.89716199495214e-05","1","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "11","UNIQUE","16","16","2","6","0.7","0.3","0.000183826302424934","","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "11","MATCH","16","17","2","6","0.7","0.3","","0.95","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "12","UNIQUE","18","18","1","6","0.7","0.3","0.000111020434345765","","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "13","UNIQUE","19","19","1","6","0.7","0.3","5.39469558495426e-05","","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "14","UNIQUE","20","20","1","6","0.7","0.3","0.000127044795178417","","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.3, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","6","0.7","0.3","0.000139660312624641","","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "2","UNIQUE","2","2","2","6","0.7","0.3","7.87383515084324e-05","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "2","MATCH","2","3","2","6","0.7","0.3","","0.95","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "3","UNIQUE","4","4","3","6","0.7","0.3","8.83726278656501e-05","","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "3","MATCH","4","5","3","6","0.7","0.3","8.83726278656501e-05","1","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "3","MATCH","4","6","3","6","0.7","0.3","","0.9","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "4","UNIQUE","7","7","1","6","0.7","0.3","5.49321294758004e-05","","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "5","UNIQUE","8","8","1","6","0.7","0.3","5.87767344329313e-05","","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "6","UNIQUE","9","9","1","6","0.7","0.3","7.95511250168625e-05","","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "7","UNIQUE","10","10","1","6","0.7","0.3","0.000127499528944698","","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "8","UNIQUE","11","11","1","6","0.7","0.3","9.63643273173668e-05","","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "9","UNIQUE","12","12","2","6","0.7","0.3","9.97891330846171e-05","","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "9","MATCH","12","13","2","6","0.7","0.3","","0.9","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "10","UNIQUE","15","15","2","6","0.7","0.3","8.65631525305057e-05","","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "10","MATCH","15","14","2","6","0.7","0.3","0.000208176415901584","0.95","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "11","UNIQUE","17","17","2","6","0.7","0.3","6.08637398185056e-05","","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "11","MATCH","17","16","2","6","0.7","0.3","","0.9","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "12","UNIQUE","18","18","1","6","0.7","0.3","0.000105538800399943","","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "13","UNIQUE","19","19","1","6","0.7","0.3","5.47200810129915e-05","","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "14","UNIQUE","20","20","1","6","0.7","0.3","0.000120771958416483","","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.3, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","6","0.7","0.3","0.000139660312624641","","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "2","UNIQUE","2","2","2","6","0.7","0.3","7.87383515084324e-05","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "2","MATCH","2","3","2","6","0.7","0.3","","0.95","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "3","UNIQUE","4","4","3","6","0.7","0.3","8.83726278656501e-05","","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "3","MATCH","4","5","3","6","0.7","0.3","8.83726278656501e-05","1","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "3","MATCH","4","6","3","6","0.7","0.3","","0.9","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "4","UNIQUE","7","7","1","6","0.7","0.3","5.49321294758004e-05","","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "5","UNIQUE","8","8","1","6","0.7","0.3","5.87767344329313e-05","","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "6","UNIQUE","9","9","1","6","0.7","0.3","7.95511250168625e-05","","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "7","UNIQUE","10","10","1","6","0.7","0.3","0.000127499528944698","","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "8","UNIQUE","11","11","1","6","0.7","0.3","9.63643273173668e-05","","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "9","UNIQUE","12","12","2","6","0.7","0.3","9.97891330846171e-05","","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "9","MATCH","12","13","2","6","0.7","0.3","","0.9","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "10","UNIQUE","15","15","2","6","0.7","0.3","8.65631525305057e-05","","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "10","MATCH","15","14","2","6","0.7","0.3","0.000208176415901584","0.95","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "11","UNIQUE","17","17","2","6","0.7","0.3","6.08637398185056e-05","","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "11","MATCH","17","16","2","6","0.7","0.3","","0.9","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "12","UNIQUE","18","18","1","6","0.7","0.3","0.000105538800399943","","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "13","UNIQUE","19","19","1","6","0.7","0.3","5.47200810129915e-05","","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "14","UNIQUE","20","20","1","6","0.7","0.3","0.000120771958416483","","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.3, doPsib="all", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","6","0.7","0.3","0.000142298340751996","","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "2","UNIQUE","2","2","2","6","0.7","0.3","7.62693916110991e-05","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "2","MATCH","2","3","2","6","0.7","0.3","0.000189358489517212","0.95","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "3","UNIQUE","4","4","3","6","0.7","0.3","9.30873850323771e-05","","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "3","MATCH","4","5","3","6","0.7","0.3","9.30873850323771e-05","1","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "3","MATCH","4","6","3","6","0.7","0.3","0.000772426488841709","0.9","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "4","UNIQUE","7","7","1","6","0.7","0.3","5.46901144978401e-05","","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "5","UNIQUE","8","8","1","6","0.7","0.3","6.29177702955718e-05","","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "6","UNIQUE","9","9","1","6","0.7","0.3","7.21654645588769e-05","","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "7","UNIQUE","10","10","1","6","0.7","0.3","0.000133522310839347","","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "8","UNIQUE","11","11","1","6","0.7","0.3","9.73623691186428e-05","","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "9","UNIQUE","12","12","2","6","0.7","0.3","9.93494912015406e-05","","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "9","MATCH","12","13","2","6","0.7","0.3","0.000477486596793918","0.9","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "10","UNIQUE","14","14","2","6","0.7","0.3","0.000213968558406211","","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "10","MATCH","14","15","2","6","0.7","0.3","0.000213968558406211","0.95","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "11","UNIQUE","16","16","2","6","0.7","0.3","0.000183826302424934","","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "11","MATCH","16","17","2","6","0.7","0.3","0.000310666451098139","0.9","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "12","UNIQUE","18","18","1","6","0.7","0.3","0.000107539220998863","","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "13","UNIQUE","19","19","1","6","0.7","0.3","5.76033606349005e-05","","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "14","UNIQUE","20","20","1","6","0.7","0.3","0.00012306111380268","","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.3, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","6","0.7","0.3","0.000139660312624641","","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "2","UNIQUE","2","2","2","6","0.7","0.3","7.87383515084324e-05","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "2","MATCH","2","3","2","6","0.7","0.3","0.000189358489517212","0.95","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "3","UNIQUE","4","4","3","6","0.7","0.3","9.08314407522557e-05","","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "3","MATCH","4","5","3","6","0.7","0.3","9.08314407522557e-05","1","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "3","MATCH","4","6","3","6","0.7","0.3","0.000753706969341719","0.9","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "4","UNIQUE","7","7","1","6","0.7","0.3","5.64605193302825e-05","","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "5","UNIQUE","8","8","1","6","0.7","0.3","6.04120936561062e-05","","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "6","UNIQUE","9","9","1","6","0.7","0.3","7.45015738971657e-05","","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "7","UNIQUE","10","10","1","6","0.7","0.3","0.000131046979013536","","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "8","UNIQUE","11","11","1","6","0.7","0.3","9.50028219078593e-05","","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "9","UNIQUE","12","12","2","6","0.7","0.3","0.000102565590142618","","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "9","MATCH","12","13","2","6","0.7","0.3","0.000492943587260153","0.9","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "10","UNIQUE","14","14","2","6","0.7","0.3","8.89716199495214e-05","","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "10","MATCH","14","15","2","6","0.7","0.3","8.89716199495214e-05","1","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "11","UNIQUE","16","16","2","6","0.7","0.3","0.000183826302424934","","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "11","MATCH","16","17","2","6","0.7","0.3","0.00012918018247193","0.95","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "12","UNIQUE","18","18","1","6","0.7","0.3","0.000111020434345765","","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "13","UNIQUE","19","19","1","6","0.7","0.3","5.39469558495426e-05","","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "14","UNIQUE","20","20","1","6","0.7","0.3","0.000127044795178417","","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.3, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","6","0.7","0.3","0.000139660312624641","","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "2","UNIQUE","2","2","2","6","0.7","0.3","7.87383515084324e-05","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "2","MATCH","2","3","2","6","0.7","0.3","0.000189358489517212","0.95","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "3","UNIQUE","4","4","3","6","0.7","0.3","8.83726278656501e-05","","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "3","MATCH","4","5","3","6","0.7","0.3","8.83726278656501e-05","1","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "3","MATCH","4","6","3","6","0.7","0.3","0.000733304073674825","0.9","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "4","UNIQUE","7","7","1","6","0.7","0.3","5.49321294758004e-05","","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "5","UNIQUE","8","8","1","6","0.7","0.3","5.87767344329313e-05","","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "6","UNIQUE","9","9","1","6","0.7","0.3","7.95511250168625e-05","","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "7","UNIQUE","10","10","1","6","0.7","0.3","0.000127499528944698","","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "8","UNIQUE","11","11","1","6","0.7","0.3","9.63643273173668e-05","","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "9","UNIQUE","12","12","2","6","0.7","0.3","9.97891330846171e-05","","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "9","MATCH","12","13","2","6","0.7","0.3","0.00047959957295534","0.9","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "10","UNIQUE","15","15","2","6","0.7","0.3","8.65631525305057e-05","","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "10","MATCH","15","14","2","6","0.7","0.3","0.000208176415901584","0.95","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "11","UNIQUE","17","17","2","6","0.7","0.3","6.08637398185056e-05","","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "11","MATCH","17","16","2","6","0.7","0.3","0.000310666451098139","0.9","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "12","UNIQUE","18","18","1","6","0.7","0.3","0.000105538800399943","","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "13","UNIQUE","19","19","1","6","0.7","0.3","5.47200810129915e-05","","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "14","UNIQUE","20","20","1","6","0.7","0.3","0.000120771958416483","","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.3, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","6","0.7","0.3","0.000139660312624641","","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "2","UNIQUE","2","2","2","6","0.7","0.3","7.87383515084324e-05","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "2","MATCH","2","3","2","6","0.7","0.3","0.000189358489517212","0.95","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "3","UNIQUE","4","4","3","6","0.7","0.3","8.83726278656501e-05","","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "3","MATCH","4","5","3","6","0.7","0.3","8.83726278656501e-05","1","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "3","MATCH","4","6","3","6","0.7","0.3","0.000733304073674825","0.9","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "4","UNIQUE","7","7","1","6","0.7","0.3","5.49321294758004e-05","","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "5","UNIQUE","8","8","1","6","0.7","0.3","5.87767344329313e-05","","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "6","UNIQUE","9","9","1","6","0.7","0.3","7.95511250168625e-05","","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "7","UNIQUE","10","10","1","6","0.7","0.3","0.000127499528944698","","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "8","UNIQUE","11","11","1","6","0.7","0.3","9.63643273173668e-05","","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "9","UNIQUE","12","12","2","6","0.7","0.3","9.97891330846171e-05","","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "9","MATCH","12","13","2","6","0.7","0.3","0.00047959957295534","0.9","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "10","UNIQUE","15","15","2","6","0.7","0.3","8.65631525305057e-05","","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "10","MATCH","15","14","2","6","0.7","0.3","0.000208176415901584","0.95","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "11","UNIQUE","17","17","2","6","0.7","0.3","6.08637398185056e-05","","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "11","MATCH","17","16","2","6","0.7","0.3","0.000310666451098139","0.9","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "12","UNIQUE","18","18","1","6","0.7","0.3","0.000105538800399943","","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "13","UNIQUE","19","19","1","6","0.7","0.3","5.47200810129915e-05","","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "14","UNIQUE","20","20","1","6","0.7","0.3","0.000120771958416483","","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.5, doPsib="missing", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","10","0.5","0.5","0.000142298340751996","","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "2","CHECK_UNIQUE","2","2","2","10","0.5","0.5","7.62693916110991e-05","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "2","MULTIPLE_MATCH","2","3","2","10","0.5","0.5","","0.95","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "3","UNIQUE","4","4","3","10","0.5","0.5","9.30873850323771e-05","","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "3","MATCH","4","5","3","10","0.5","0.5","9.30873850323771e-05","1","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "3","MATCH","4","6","3","10","0.5","0.5","","0.9","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "4","UNIQUE","7","7","1","10","0.5","0.5","5.46901144978401e-05","","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "5","UNIQUE","8","8","1","10","0.5","0.5","6.29177702955718e-05","","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "6","UNIQUE","9","9","1","10","0.5","0.5","7.21654645588769e-05","","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "7","CHECK_UNIQUE","10","10","2","10","0.5","0.5","0.000133522310839347","","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "7","MULTIPLE_MATCH","10","3","2","10","0.5","0.5","","0.5","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "8","UNIQUE","11","11","1","10","0.5","0.5","9.73623691186428e-05","","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "9","UNIQUE","12","12","2","10","0.5","0.5","9.93494912015406e-05","","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "9","MATCH","12","13","2","10","0.5","0.5","","0.9","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "10","UNIQUE","14","14","2","10","0.5","0.5","0.000213968558406211","","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "10","MATCH","14","15","2","10","0.5","0.5","0.000213968558406211","0.95","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "11","UNIQUE","16","16","2","10","0.5","0.5","0.000183826302424934","","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "11","MATCH","16","17","2","10","0.5","0.5","","0.9","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "12","UNIQUE","18","18","1","10","0.5","0.5","0.000107539220998863","","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "13","UNIQUE","19","19","1","10","0.5","0.5","5.76033606349005e-05","","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "14","UNIQUE","20","20","1","10","0.5","0.5","0.00012306111380268","","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.5, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","10","0.5","0.5","0.000139660312624641","","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "2","CHECK_UNIQUE","2","2","2","10","0.5","0.5","7.87383515084324e-05","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "2","MULTIPLE_MATCH","2","3","2","10","0.5","0.5","","0.95","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "3","UNIQUE","4","4","3","10","0.5","0.5","9.08314407522557e-05","","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "3","MATCH","4","5","3","10","0.5","0.5","9.08314407522557e-05","1","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "3","MATCH","4","6","3","10","0.5","0.5","","0.9","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "4","UNIQUE","7","7","1","10","0.5","0.5","5.64605193302825e-05","","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "5","UNIQUE","8","8","1","10","0.5","0.5","6.04120936561062e-05","","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "6","UNIQUE","9","9","1","10","0.5","0.5","7.45015738971657e-05","","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "7","CHECK_UNIQUE","10","10","2","10","0.5","0.5","0.000131046979013536","","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "7","MULTIPLE_MATCH","10","3","2","10","0.5","0.5","","0.5","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "8","UNIQUE","11","11","1","10","0.5","0.5","9.50028219078593e-05","","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "9","UNIQUE","12","12","2","10","0.5","0.5","0.000102565590142618","","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "9","MATCH","12","13","2","10","0.5","0.5","","0.9","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "10","UNIQUE","14","14","2","10","0.5","0.5","8.89716199495214e-05","","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "10","MATCH","14","15","2","10","0.5","0.5","8.89716199495214e-05","1","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "11","UNIQUE","16","16","2","10","0.5","0.5","0.000183826302424934","","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "11","MATCH","16","17","2","10","0.5","0.5","","0.95","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "12","UNIQUE","18","18","1","10","0.5","0.5","0.000111020434345765","","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "13","UNIQUE","19","19","1","10","0.5","0.5","5.39469558495426e-05","","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "14","UNIQUE","20","20","1","10","0.5","0.5","0.000127044795178417","","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.5, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","10","0.5","0.5","0.000139660312624641","","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "2","CHECK_UNIQUE","2","2","2","10","0.5","0.5","7.87383515084324e-05","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "2","MULTIPLE_MATCH","2","3","2","10","0.5","0.5","","0.95","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "3","UNIQUE","4","4","3","10","0.5","0.5","8.83726278656501e-05","","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "3","MATCH","4","5","3","10","0.5","0.5","8.83726278656501e-05","1","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "3","MATCH","4","6","3","10","0.5","0.5","","0.9","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "4","UNIQUE","7","7","1","10","0.5","0.5","5.49321294758004e-05","","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "5","UNIQUE","8","8","1","10","0.5","0.5","5.87767344329313e-05","","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "6","UNIQUE","9","9","1","10","0.5","0.5","7.95511250168625e-05","","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "7","CHECK_UNIQUE","10","10","2","10","0.5","0.5","0.000127499528944698","","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "7","MULTIPLE_MATCH","10","3","2","10","0.5","0.5","","0.5","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "8","UNIQUE","11","11","1","10","0.5","0.5","9.63643273173668e-05","","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "9","UNIQUE","12","12","2","10","0.5","0.5","9.97891330846171e-05","","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "9","MATCH","12","13","2","10","0.5","0.5","","0.9","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "10","UNIQUE","15","15","2","10","0.5","0.5","8.65631525305057e-05","","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "10","MATCH","15","14","2","10","0.5","0.5","0.000208176415901584","0.95","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "11","UNIQUE","17","17","2","10","0.5","0.5","6.08637398185056e-05","","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "11","MATCH","17","16","2","10","0.5","0.5","","0.9","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "12","UNIQUE","18","18","1","10","0.5","0.5","0.000105538800399943","","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "13","UNIQUE","19","19","1","10","0.5","0.5","5.47200810129915e-05","","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "14","UNIQUE","20","20","1","10","0.5","0.5","0.000120771958416483","","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.5, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","10","0.5","0.5","0.000139660312624641","","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "2","CHECK_UNIQUE","2","2","2","10","0.5","0.5","7.87383515084324e-05","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "2","MULTIPLE_MATCH","2","3","2","10","0.5","0.5","","0.95","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "3","UNIQUE","4","4","3","10","0.5","0.5","8.83726278656501e-05","","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "3","MATCH","4","5","3","10","0.5","0.5","8.83726278656501e-05","1","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "3","MATCH","4","6","3","10","0.5","0.5","","0.9","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "4","UNIQUE","7","7","1","10","0.5","0.5","5.49321294758004e-05","","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "5","UNIQUE","8","8","1","10","0.5","0.5","5.87767344329313e-05","","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "6","UNIQUE","9","9","1","10","0.5","0.5","7.95511250168625e-05","","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "7","CHECK_UNIQUE","10","10","2","10","0.5","0.5","0.000127499528944698","","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "7","MULTIPLE_MATCH","10","3","2","10","0.5","0.5","","0.5","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "8","UNIQUE","11","11","1","10","0.5","0.5","9.63643273173668e-05","","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "9","UNIQUE","12","12","2","10","0.5","0.5","9.97891330846171e-05","","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "9","MATCH","12","13","2","10","0.5","0.5","","0.9","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "10","UNIQUE","15","15","2","10","0.5","0.5","8.65631525305057e-05","","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "10","MATCH","15","14","2","10","0.5","0.5","0.000208176415901584","0.95","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "11","UNIQUE","17","17","2","10","0.5","0.5","6.08637398185056e-05","","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "11","MATCH","17","16","2","10","0.5","0.5","","0.9","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "12","UNIQUE","18","18","1","10","0.5","0.5","0.000105538800399943","","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "13","UNIQUE","19","19","1","10","0.5","0.5","5.47200810129915e-05","","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "14","UNIQUE","20","20","1","10","0.5","0.5","0.000120771958416483","","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.5, doPsib="all", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","10","0.5","0.5","0.000142298340751996","","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "2","CHECK_UNIQUE","2","2","2","10","0.5","0.5","7.62693916110991e-05","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "2","MULTIPLE_MATCH","2","3","2","10","0.5","0.5","0.000189358489517212","0.95","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "3","UNIQUE","4","4","3","10","0.5","0.5","9.30873850323771e-05","","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "3","MATCH","4","5","3","10","0.5","0.5","9.30873850323771e-05","1","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "3","MATCH","4","6","3","10","0.5","0.5","0.000772426488841709","0.9","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "4","UNIQUE","7","7","1","10","0.5","0.5","5.46901144978401e-05","","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "5","UNIQUE","8","8","1","10","0.5","0.5","6.29177702955718e-05","","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "6","UNIQUE","9","9","1","10","0.5","0.5","7.21654645588769e-05","","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "7","CHECK_UNIQUE","10","10","2","10","0.5","0.5","0.000133522310839347","","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "7","MULTIPLE_MATCH","10","3","2","10","0.5","0.5","0.0794538937226676","0.5","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "8","UNIQUE","11","11","1","10","0.5","0.5","9.73623691186428e-05","","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "9","UNIQUE","12","12","2","10","0.5","0.5","9.93494912015406e-05","","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "9","MATCH","12","13","2","10","0.5","0.5","0.000477486596793918","0.9","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "10","UNIQUE","14","14","2","10","0.5","0.5","0.000213968558406211","","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "10","MATCH","14","15","2","10","0.5","0.5","0.000213968558406211","0.95","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "11","UNIQUE","16","16","2","10","0.5","0.5","0.000183826302424934","","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "11","MATCH","16","17","2","10","0.5","0.5","0.000310666451098139","0.9","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "12","UNIQUE","18","18","1","10","0.5","0.5","0.000107539220998863","","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "13","UNIQUE","19","19","1","10","0.5","0.5","5.76033606349005e-05","","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "14","UNIQUE","20","20","1","10","0.5","0.5","0.00012306111380268","","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.5, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","10","0.5","0.5","0.000139660312624641","","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "2","CHECK_UNIQUE","2","2","2","10","0.5","0.5","7.87383515084324e-05","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "2","MULTIPLE_MATCH","2","3","2","10","0.5","0.5","0.000189358489517212","0.95","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "3","UNIQUE","4","4","3","10","0.5","0.5","9.08314407522557e-05","","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "3","MATCH","4","5","3","10","0.5","0.5","9.08314407522557e-05","1","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "3","MATCH","4","6","3","10","0.5","0.5","0.000753706969341719","0.9","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "4","UNIQUE","7","7","1","10","0.5","0.5","5.64605193302825e-05","","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "5","UNIQUE","8","8","1","10","0.5","0.5","6.04120936561062e-05","","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "6","UNIQUE","9","9","1","10","0.5","0.5","7.45015738971657e-05","","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "7","CHECK_UNIQUE","10","10","2","10","0.5","0.5","0.000131046979013536","","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "7","MULTIPLE_MATCH","10","3","2","10","0.5","0.5","0.0794538937226676","0.5","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "8","UNIQUE","11","11","1","10","0.5","0.5","9.50028219078593e-05","","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "9","UNIQUE","12","12","2","10","0.5","0.5","0.000102565590142618","","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "9","MATCH","12","13","2","10","0.5","0.5","0.000492943587260153","0.9","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "10","UNIQUE","14","14","2","10","0.5","0.5","8.89716199495214e-05","","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "10","MATCH","14","15","2","10","0.5","0.5","8.89716199495214e-05","1","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "11","UNIQUE","16","16","2","10","0.5","0.5","0.000183826302424934","","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "11","MATCH","16","17","2","10","0.5","0.5","0.00012918018247193","0.95","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "12","UNIQUE","18","18","1","10","0.5","0.5","0.000111020434345765","","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "13","UNIQUE","19","19","1","10","0.5","0.5","5.39469558495426e-05","","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "14","UNIQUE","20","20","1","10","0.5","0.5","0.000127044795178417","","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.5, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","10","0.5","0.5","0.000139660312624641","","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "2","CHECK_UNIQUE","2","2","2","10","0.5","0.5","7.87383515084324e-05","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "2","MULTIPLE_MATCH","2","3","2","10","0.5","0.5","0.000189358489517212","0.95","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "3","UNIQUE","4","4","3","10","0.5","0.5","8.83726278656501e-05","","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "3","MATCH","4","5","3","10","0.5","0.5","8.83726278656501e-05","1","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "3","MATCH","4","6","3","10","0.5","0.5","0.000733304073674825","0.9","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "4","UNIQUE","7","7","1","10","0.5","0.5","5.49321294758004e-05","","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "5","UNIQUE","8","8","1","10","0.5","0.5","5.87767344329313e-05","","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "6","UNIQUE","9","9","1","10","0.5","0.5","7.95511250168625e-05","","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "7","CHECK_UNIQUE","10","10","2","10","0.5","0.5","0.000127499528944698","","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "7","MULTIPLE_MATCH","10","3","2","10","0.5","0.5","0.0794538937226676","0.5","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "8","UNIQUE","11","11","1","10","0.5","0.5","9.63643273173668e-05","","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "9","UNIQUE","12","12","2","10","0.5","0.5","9.97891330846171e-05","","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "9","MATCH","12","13","2","10","0.5","0.5","0.00047959957295534","0.9","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "10","UNIQUE","15","15","2","10","0.5","0.5","8.65631525305057e-05","","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "10","MATCH","15","14","2","10","0.5","0.5","0.000208176415901584","0.95","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "11","UNIQUE","17","17","2","10","0.5","0.5","6.08637398185056e-05","","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "11","MATCH","17","16","2","10","0.5","0.5","0.000310666451098139","0.9","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "12","UNIQUE","18","18","1","10","0.5","0.5","0.000105538800399943","","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "13","UNIQUE","19","19","1","10","0.5","0.5","5.47200810129915e-05","","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "14","UNIQUE","20","20","1","10","0.5","0.5","0.000120771958416483","","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.5, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","10","0.5","0.5","0.000139660312624641","","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "2","CHECK_UNIQUE","2","2","2","10","0.5","0.5","7.87383515084324e-05","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "2","MULTIPLE_MATCH","2","3","2","10","0.5","0.5","0.000189358489517212","0.95","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "3","UNIQUE","4","4","3","10","0.5","0.5","8.83726278656501e-05","","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "3","MATCH","4","5","3","10","0.5","0.5","8.83726278656501e-05","1","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "3","MATCH","4","6","3","10","0.5","0.5","0.000733304073674825","0.9","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "4","UNIQUE","7","7","1","10","0.5","0.5","5.49321294758004e-05","","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "5","UNIQUE","8","8","1","10","0.5","0.5","5.87767344329313e-05","","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "6","UNIQUE","9","9","1","10","0.5","0.5","7.95511250168625e-05","","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "7","CHECK_UNIQUE","10","10","2","10","0.5","0.5","0.000127499528944698","","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "7","MULTIPLE_MATCH","10","3","2","10","0.5","0.5","0.0794538937226676","0.5","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "8","UNIQUE","11","11","1","10","0.5","0.5","9.63643273173668e-05","","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "9","UNIQUE","12","12","2","10","0.5","0.5","9.97891330846171e-05","","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "9","MATCH","12","13","2","10","0.5","0.5","0.00047959957295534","0.9","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "10","UNIQUE","15","15","2","10","0.5","0.5","8.65631525305057e-05","","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "10","MATCH","15","14","2","10","0.5","0.5","0.000208176415901584","0.95","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "11","UNIQUE","17","17","2","10","0.5","0.5","6.08637398185056e-05","","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "11","MATCH","17","16","2","10","0.5","0.5","0.000310666451098139","0.9","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "12","UNIQUE","18","18","1","10","0.5","0.5","0.000105538800399943","","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "13","UNIQUE","19","19","1","10","0.5","0.5","5.47200810129915e-05","","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "14","UNIQUE","20","20","1","10","0.5","0.5","0.000120771958416483","","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.7, doPsib="missing", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","6","","","14","0.3","0.7","","","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "","UNCLASSIFIED","13","","","14","0.3","0.7","","","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "1","CHECK_UNIQUE","1","1","8","14","0.3","0.7","0.000155070035893321","","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "1","MULTIPLE_MATCH","1","3","8","14","0.3","0.7","","0.45","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","1","2","8","14","0.3","0.7","","0.4","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MULTIPLE_MATCH","1","8","8","14","0.3","0.7","","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "1","MULTIPLE_MATCH","1","10","8","14","0.3","0.7","","0.4","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "1","MATCH","1","4","8","14","0.3","0.7","","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","1","5","8","14","0.3","0.7","","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","1","19","8","14","0.3","0.7","","0.35","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "2","CHECK_UNIQUE","7","7","4","14","0.3","0.7","0.000134613881952623","","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "2","MULTIPLE_MATCH","7","8","4","14","0.3","0.7","","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "2","MULTIPLE_MATCH","7","18","4","14","0.3","0.7","","0.4","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "2","MULTIPLE_MATCH","7","17","4","14","0.3","0.7","","0.35","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "3","CHECK_UNIQUE","9","9","4","14","0.3","0.7","0.000118019772594261","","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "3","MULTIPLE_MATCH","9","3","4","14","0.3","0.7","","0.35","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "3","MULTIPLE_MATCH","9","10","4","14","0.3","0.7","","0.35","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "3","MATCH","9","12","4","14","0.3","0.7","","0.35","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "4","CHECK_UNIQUE","11","11","3","14","0.3","0.7","0.000178866432159155","","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "4","MULTIPLE_MATCH","11","14","3","14","0.3","0.7","","0.45","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "4","MULTIPLE_MATCH","11","15","3","14","0.3","0.7","","0.4","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "5","CHECK_UNIQUE","16","16","6","14","0.3","0.7","0.000517605185160769","","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "5","MULTIPLE_MATCH","16","17","6","14","0.3","0.7","","0.9","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "5","MULTIPLE_MATCH","16","14","6","14","0.3","0.7","","0.4","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "5","MULTIPLE_MATCH","16","18","6","14","0.3","0.7","","0.4","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "5","MULTIPLE_MATCH","16","15","6","14","0.3","0.7","","0.35","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "5","MATCH","16","20","6","14","0.3","0.7","","0.35","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.7, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","16","","","14","0.3","0.7","","","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "1","CHECK_UNIQUE","1","1","5","14","0.3","0.7","0.000193418485842718","","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","919","919","1012","1020"
  "1","MULTIPLE_MATCH","1","3","5","14","0.3","0.7","","0.5","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MULTIPLE_MATCH","1","2","5","14","0.3","0.7","","0.45","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MULTIPLE_MATCH","1","8","5","14","0.3","0.7","","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "1","MULTIPLE_MATCH","1","10","5","14","0.3","0.7","","0.4","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "2","CHECK_UNIQUE","4","4","10","14","0.3","0.7","0.000186603229654423","","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "2","MATCH","4","5","10","14","0.3","0.7","0.000186603229654423","1","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "2","MATCH","4","6","10","14","0.3","0.7","","0.9","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "2","MATCH","4","20","10","14","0.3","0.7","","0.45","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"
  "2","MULTIPLE_MATCH","4","12","10","14","0.3","0.7","","0.4","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "2","MATCH","4","13","10","14","0.3","0.7","","0.4","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "2","MULTIPLE_MATCH","4","1","10","14","0.3","0.7","","0.35","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "2","MULTIPLE_MATCH","4","2","10","14","0.3","0.7","","0.35","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "2","MULTIPLE_MATCH","4","8","10","14","0.3","0.7","","0.35","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "2","MATCH","4","19","10","14","0.3","0.7","","0.35","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "3","CHECK_UNIQUE","7","7","4","14","0.3","0.7","0.000110896085602703","","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "3","MULTIPLE_MATCH","7","8","4","14","0.3","0.7","","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "3","MATCH","7","18","4","14","0.3","0.7","","0.4","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "3","MATCH","7","17","4","14","0.3","0.7","","0.35","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "4","CHECK_UNIQUE","9","9","4","14","0.3","0.7","0.000101505245233598","","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "4","MULTIPLE_MATCH","9","3","4","14","0.3","0.7","","0.35","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "4","MULTIPLE_MATCH","9","10","4","14","0.3","0.7","","0.35","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "4","MULTIPLE_MATCH","9","12","4","14","0.3","0.7","","0.35","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "5","UNIQUE","11","11","3","14","0.3","0.7","0.00012760884561797","","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "5","MATCH","11","14","3","14","0.3","0.7","","0.45","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "5","MATCH","11","15","3","14","0.3","0.7","","0.4","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.7, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","13","","","14","0.3","0.7","","","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "","UNCLASSIFIED","16","","","14","0.3","0.7","","","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "1","CHECK_UNIQUE","2","2","10","14","0.3","0.7","0.00011118442685592","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MULTIPLE_MATCH","2","3","10","14","0.3","0.7","","0.95","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MULTIPLE_MATCH","2","10","10","14","0.3","0.7","","0.45","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "1","MULTIPLE_MATCH","2","1","10","14","0.3","0.7","","0.4","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "1","MULTIPLE_MATCH","2","8","10","14","0.3","0.7","","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "1","MATCH","2","20","10","14","0.3","0.7","","0.4","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"
  "1","MULTIPLE_MATCH","2","4","10","14","0.3","0.7","","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MULTIPLE_MATCH","2","5","10","14","0.3","0.7","","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","6","10","14","0.3","0.7","","0.35","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "1","MULTIPLE_MATCH","2","12","10","14","0.3","0.7","","0.35","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "2","CHECK_UNIQUE","7","7","4","14","0.3","0.7","0.000107785729710639","","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "2","MULTIPLE_MATCH","7","8","4","14","0.3","0.7","","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "2","MATCH","7","18","4","14","0.3","0.7","","0.4","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "2","MATCH","7","17","4","14","0.3","0.7","","0.35","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "3","CHECK_UNIQUE","9","9","4","14","0.3","0.7","0.000222199130072356","","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "3","MULTIPLE_MATCH","9","3","4","14","0.3","0.7","","0.35","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "3","MULTIPLE_MATCH","9","10","4","14","0.3","0.7","","0.35","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "3","MULTIPLE_MATCH","9","12","4","14","0.3","0.7","","0.35","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "4","UNIQUE","11","11","3","14","0.3","0.7","0.000137448948177624","","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "4","MATCH","11","14","3","14","0.3","0.7","","0.45","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "4","MATCH","11","15","3","14","0.3","0.7","","0.4","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "5","CHECK_UNIQUE","19","19","5","14","0.3","0.7","0.000161582987056963","","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "5","MULTIPLE_MATCH","19","1","5","14","0.3","0.7","","0.35","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "5","MULTIPLE_MATCH","19","4","5","14","0.3","0.7","","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "5","MULTIPLE_MATCH","19","5","5","14","0.3","0.7","","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "5","MULTIPLE_MATCH","19","10","5","14","0.3","0.7","","0.35","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.7, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","13","","","14","0.3","0.7","","","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "","UNCLASSIFIED","16","","","14","0.3","0.7","","","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "1","CHECK_UNIQUE","2","2","10","14","0.3","0.7","0.00011118442685592","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MULTIPLE_MATCH","2","3","10","14","0.3","0.7","","0.95","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MULTIPLE_MATCH","2","10","10","14","0.3","0.7","","0.45","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "1","MULTIPLE_MATCH","2","1","10","14","0.3","0.7","","0.4","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "1","MULTIPLE_MATCH","2","8","10","14","0.3","0.7","","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "1","MATCH","2","20","10","14","0.3","0.7","","0.4","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"
  "1","MULTIPLE_MATCH","2","4","10","14","0.3","0.7","","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MULTIPLE_MATCH","2","5","10","14","0.3","0.7","","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","6","10","14","0.3","0.7","","0.35","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "1","MULTIPLE_MATCH","2","12","10","14","0.3","0.7","","0.35","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "2","CHECK_UNIQUE","7","7","4","14","0.3","0.7","0.000107785729710639","","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "2","MULTIPLE_MATCH","7","8","4","14","0.3","0.7","","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "2","MATCH","7","18","4","14","0.3","0.7","","0.4","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "2","MATCH","7","17","4","14","0.3","0.7","","0.35","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "3","CHECK_UNIQUE","9","9","4","14","0.3","0.7","0.000222199130072356","","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "3","MULTIPLE_MATCH","9","3","4","14","0.3","0.7","","0.35","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "3","MULTIPLE_MATCH","9","10","4","14","0.3","0.7","","0.35","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "3","MULTIPLE_MATCH","9","12","4","14","0.3","0.7","","0.35","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "4","UNIQUE","11","11","3","14","0.3","0.7","0.000137448948177624","","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "4","MATCH","11","14","3","14","0.3","0.7","","0.45","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "4","MATCH","11","15","3","14","0.3","0.7","","0.4","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "5","CHECK_UNIQUE","19","19","5","14","0.3","0.7","0.000161582987056963","","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "5","MULTIPLE_MATCH","19","1","5","14","0.3","0.7","","0.35","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "5","MULTIPLE_MATCH","19","4","5","14","0.3","0.7","","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "5","MULTIPLE_MATCH","19","5","5","14","0.3","0.7","","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "5","MULTIPLE_MATCH","19","10","5","14","0.3","0.7","","0.35","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.7, doPsib="all", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","6","","","14","0.3","0.7","","","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "","UNCLASSIFIED","13","","","14","0.3","0.7","","","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "1","CHECK_UNIQUE","1","1","8","14","0.3","0.7","0.000155070035893321","","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "1","MULTIPLE_MATCH","1","3","8","14","0.3","0.7","0.485","0.45","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","1","2","8","14","0.3","0.7","0.485","0.4","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MULTIPLE_MATCH","1","8","8","14","0.3","0.7","0.191575","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "1","MULTIPLE_MATCH","1","10","8","14","0.3","0.7","0.453125","0.4","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "1","MATCH","1","4","8","14","0.3","0.7","1","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","1","5","8","14","0.3","0.7","1","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","1","19","8","14","0.3","0.7","0.405","0.35","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "2","CHECK_UNIQUE","7","7","4","14","0.3","0.7","0.000134613881952623","","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "2","MULTIPLE_MATCH","7","8","4","14","0.3","0.7","0.335","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "2","MULTIPLE_MATCH","7","18","4","14","0.3","0.7","0.28564453125","0.4","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "2","MULTIPLE_MATCH","7","17","4","14","0.3","0.7","0.28564453125","0.35","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "3","CHECK_UNIQUE","9","9","4","14","0.3","0.7","0.000118019772594261","","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "3","MULTIPLE_MATCH","9","3","4","14","0.3","0.7","0.49","0.35","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "3","MULTIPLE_MATCH","9","10","4","14","0.3","0.7","0.49","0.35","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "3","MATCH","9","12","4","14","0.3","0.7","0.49","0.35","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "4","CHECK_UNIQUE","11","11","3","14","0.3","0.7","0.000178866432159155","","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "4","MULTIPLE_MATCH","11","14","3","14","0.3","0.7","0.06648075","0.45","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "4","MULTIPLE_MATCH","11","15","3","14","0.3","0.7","0.06648075","0.4","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "5","CHECK_UNIQUE","16","16","6","14","0.3","0.7","0.000517605185160769","","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "5","MULTIPLE_MATCH","16","17","6","14","0.3","0.7","0.000920186995841368","0.9","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "5","MULTIPLE_MATCH","16","14","6","14","0.3","0.7","0.49","0.4","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "5","MULTIPLE_MATCH","16","18","6","14","0.3","0.7","0.12814453125","0.4","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "5","MULTIPLE_MATCH","16","15","6","14","0.3","0.7","0.49","0.35","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "5","MATCH","16","20","6","14","0.3","0.7","0.5625","0.35","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.7, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","16","","","14","0.3","0.7","","","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "1","CHECK_UNIQUE","1","1","5","14","0.3","0.7","0.000193418485842718","","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","919","919","1012","1020"
  "1","MULTIPLE_MATCH","1","3","5","14","0.3","0.7","0.1584","0.5","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MULTIPLE_MATCH","1","2","5","14","0.3","0.7","0.1584","0.45","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MULTIPLE_MATCH","1","8","5","14","0.3","0.7","0.187","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "1","MULTIPLE_MATCH","1","10","5","14","0.3","0.7","0.445","0.4","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "2","CHECK_UNIQUE","4","4","10","14","0.3","0.7","0.000186603229654423","","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "2","MATCH","4","5","10","14","0.3","0.7","0.000186603229654423","1","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "2","MATCH","4","6","10","14","0.3","0.7","0.00131064603795907","0.9","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "2","MATCH","4","20","10","14","0.3","0.7","0.44","0.45","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"
  "2","MULTIPLE_MATCH","4","12","10","14","0.3","0.7","0.19845","0.4","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "2","MATCH","4","13","10","14","0.3","0.7","0.19845","0.4","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "2","MULTIPLE_MATCH","4","1","10","14","0.3","0.7","1","0.35","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "2","MULTIPLE_MATCH","4","2","10","14","0.3","0.7","1","0.35","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "2","MULTIPLE_MATCH","4","8","10","14","0.3","0.7","1","0.35","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "2","MATCH","4","19","10","14","0.3","0.7","1","0.35","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "3","CHECK_UNIQUE","7","7","4","14","0.3","0.7","0.000110896085602703","","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "3","MULTIPLE_MATCH","7","8","4","14","0.3","0.7","0.405","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "3","MATCH","7","18","4","14","0.3","0.7","0.1880125","0.4","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "3","MATCH","7","17","4","14","0.3","0.7","0.1880125","0.35","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "4","CHECK_UNIQUE","9","9","4","14","0.3","0.7","0.000101505245233598","","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "4","MULTIPLE_MATCH","9","3","4","14","0.3","0.7","0.5625","0.35","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "4","MULTIPLE_MATCH","9","10","4","14","0.3","0.7","0.5625","0.35","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "4","MULTIPLE_MATCH","9","12","4","14","0.3","0.7","0.5625","0.35","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "5","UNIQUE","11","11","3","14","0.3","0.7","0.00012760884561797","","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "5","MATCH","11","14","3","14","0.3","0.7","0.048843","0.45","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "5","MATCH","11","15","3","14","0.3","0.7","0.048843","0.4","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.7, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","13","","","14","0.3","0.7","","","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "","UNCLASSIFIED","16","","","14","0.3","0.7","","","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "1","CHECK_UNIQUE","2","2","10","14","0.3","0.7","0.00011118442685592","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MULTIPLE_MATCH","2","3","10","14","0.3","0.7","0.000304614868098411","0.95","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MULTIPLE_MATCH","2","10","10","14","0.3","0.7","0.094608","0.45","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "1","MULTIPLE_MATCH","2","1","10","14","0.3","0.7","0.405","0.4","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "1","MULTIPLE_MATCH","2","8","10","14","0.3","0.7","0.159975","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "1","MATCH","2","20","10","14","0.3","0.7","0.144175","0.4","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"
  "1","MULTIPLE_MATCH","2","4","10","14","0.3","0.7","1","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MULTIPLE_MATCH","2","5","10","14","0.3","0.7","1","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","6","10","14","0.3","0.7","0.64","0.35","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "1","MULTIPLE_MATCH","2","12","10","14","0.3","0.7","0.2336","0.35","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "2","CHECK_UNIQUE","7","7","4","14","0.3","0.7","0.000107785729710639","","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "2","MULTIPLE_MATCH","7","8","4","14","0.3","0.7","0.37","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "2","MATCH","7","18","4","14","0.3","0.7","0.21805","0.4","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "2","MATCH","7","17","4","14","0.3","0.7","0.21805","0.35","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "3","CHECK_UNIQUE","9","9","4","14","0.3","0.7","0.000222199130072356","","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "3","MULTIPLE_MATCH","9","3","4","14","0.3","0.7","0.64","0.35","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "3","MULTIPLE_MATCH","9","10","4","14","0.3","0.7","0.64","0.35","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "3","MULTIPLE_MATCH","9","12","4","14","0.3","0.7","0.64","0.35","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "4","UNIQUE","11","11","3","14","0.3","0.7","0.000137448948177624","","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "4","MATCH","11","14","3","14","0.3","0.7","0.048843","0.45","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "4","MATCH","11","15","3","14","0.3","0.7","0.048843","0.4","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "5","CHECK_UNIQUE","19","19","5","14","0.3","0.7","0.000161582987056963","","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "5","MULTIPLE_MATCH","19","1","5","14","0.3","0.7","0.365","0.35","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "5","MULTIPLE_MATCH","19","4","5","14","0.3","0.7","1","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "5","MULTIPLE_MATCH","19","5","5","14","0.3","0.7","1","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "5","MULTIPLE_MATCH","19","10","5","14","0.3","0.7","0.37","0.35","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.7, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","13","","","14","0.3","0.7","","","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "","UNCLASSIFIED","16","","","14","0.3","0.7","","","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "1","CHECK_UNIQUE","2","2","10","14","0.3","0.7","0.00011118442685592","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MULTIPLE_MATCH","2","3","10","14","0.3","0.7","0.000304614868098411","0.95","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MULTIPLE_MATCH","2","10","10","14","0.3","0.7","0.094608","0.45","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "1","MULTIPLE_MATCH","2","1","10","14","0.3","0.7","0.405","0.4","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "1","MULTIPLE_MATCH","2","8","10","14","0.3","0.7","0.159975","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "1","MATCH","2","20","10","14","0.3","0.7","0.144175","0.4","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"
  "1","MULTIPLE_MATCH","2","4","10","14","0.3","0.7","1","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MULTIPLE_MATCH","2","5","10","14","0.3","0.7","1","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","6","10","14","0.3","0.7","0.64","0.35","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "1","MULTIPLE_MATCH","2","12","10","14","0.3","0.7","0.2336","0.35","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "2","CHECK_UNIQUE","7","7","4","14","0.3","0.7","0.000107785729710639","","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "2","MULTIPLE_MATCH","7","8","4","14","0.3","0.7","0.37","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "2","MATCH","7","18","4","14","0.3","0.7","0.21805","0.4","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "2","MATCH","7","17","4","14","0.3","0.7","0.21805","0.35","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "3","CHECK_UNIQUE","9","9","4","14","0.3","0.7","0.000222199130072356","","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "3","MULTIPLE_MATCH","9","3","4","14","0.3","0.7","0.64","0.35","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "3","MULTIPLE_MATCH","9","10","4","14","0.3","0.7","0.64","0.35","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "3","MULTIPLE_MATCH","9","12","4","14","0.3","0.7","0.64","0.35","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "4","UNIQUE","11","11","3","14","0.3","0.7","0.000137448948177624","","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "4","MATCH","11","14","3","14","0.3","0.7","0.048843","0.45","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "4","MATCH","11","15","3","14","0.3","0.7","0.048843","0.4","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "5","CHECK_UNIQUE","19","19","5","14","0.3","0.7","0.000161582987056963","","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "5","MULTIPLE_MATCH","19","1","5","14","0.3","0.7","0.365","0.35","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "5","MULTIPLE_MATCH","19","4","5","14","0.3","0.7","1","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "5","MULTIPLE_MATCH","19","5","5","14","0.3","0.7","1","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "5","MULTIPLE_MATCH","19","10","5","14","0.3","0.7","0.37","0.35","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.9, doPsib="missing", consensusMethod=1)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  'x' must be atomic 
    Rejected :  amUnique(amdataExample2, cutHeight=0.9, doPsib="missing", consensusMethod=1)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.9, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","18","0.1","0.9","0.023283064365387","","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","919","919","1012","1020"
  "1","MATCH","1","3","20","18","0.1","0.9","","0.5","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","1","2","20","18","0.1","0.9","","0.45","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","1","8","20","18","0.1","0.9","","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "1","MATCH","1","10","20","18","0.1","0.9","","0.4","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "1","MATCH","1","4","20","18","0.1","0.9","","0.3","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","1","5","20","18","0.1","0.9","","0.3","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","1","19","20","18","0.1","0.9","","0.3","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "1","MATCH","1","6","20","18","0.1","0.9","","0.25","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "1","MATCH","1","14","20","18","0.1","0.9","","0.25","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","1","11","20","18","0.1","0.9","","0.2","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "1","MATCH","1","12","20","18","0.1","0.9","","0.2","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "1","MATCH","1","13","20","18","0.1","0.9","","0.2","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "1","MATCH","1","15","20","18","0.1","0.9","","0.2","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","1","16","20","18","0.1","0.9","","0.2","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "1","MATCH","1","17","20","18","0.1","0.9","","0.2","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "1","MATCH","1","18","20","18","0.1","0.9","","0.2","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "1","MATCH","1","20","20","18","0.1","0.9","","0.2","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"
  "1","MATCH","1","9","20","18","0.1","0.9","","0.15","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "1","MATCH","1","7","20","18","0.1","0.9","","0.1","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.9, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","18","","","18","0.1","0.9","","","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "1","UNIQUE","2","2","19","18","0.1","0.9","0.0372529029846191","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","2","3","19","18","0.1","0.9","","0.95","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","2","10","19","18","0.1","0.9","","0.45","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "1","MATCH","2","1","19","18","0.1","0.9","","0.4","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "1","MATCH","2","8","19","18","0.1","0.9","","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "1","MATCH","2","20","19","18","0.1","0.9","","0.4","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"
  "1","MATCH","2","4","19","18","0.1","0.9","","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","5","19","18","0.1","0.9","","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","6","19","18","0.1","0.9","","0.35","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","12","19","18","0.1","0.9","","0.35","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "1","MATCH","2","9","19","18","0.1","0.9","","0.3","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "1","MATCH","2","13","19","18","0.1","0.9","","0.3","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "1","MATCH","2","16","19","18","0.1","0.9","","0.2","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "1","MATCH","2","19","19","18","0.1","0.9","","0.2","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "1","MATCH","2","7","19","18","0.1","0.9","","0.15","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "1","MATCH","2","11","19","18","0.1","0.9","","0.15","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "1","MATCH","2","15","19","18","0.1","0.9","","0.15","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","2","17","19","18","0.1","0.9","","0.15","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "1","MATCH","2","14","19","18","0.1","0.9","","0.1","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.9, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","18","","","18","0.1","0.9","","","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "1","UNIQUE","2","2","19","18","0.1","0.9","0.0372529029846191","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","2","3","19","18","0.1","0.9","","0.95","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","2","10","19","18","0.1","0.9","","0.45","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "1","MATCH","2","1","19","18","0.1","0.9","","0.4","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "1","MATCH","2","8","19","18","0.1","0.9","","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "1","MATCH","2","20","19","18","0.1","0.9","","0.4","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"
  "1","MATCH","2","4","19","18","0.1","0.9","","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","5","19","18","0.1","0.9","","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","6","19","18","0.1","0.9","","0.35","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","12","19","18","0.1","0.9","","0.35","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "1","MATCH","2","9","19","18","0.1","0.9","","0.3","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "1","MATCH","2","13","19","18","0.1","0.9","","0.3","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "1","MATCH","2","16","19","18","0.1","0.9","","0.2","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "1","MATCH","2","19","19","18","0.1","0.9","","0.2","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "1","MATCH","2","7","19","18","0.1","0.9","","0.15","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "1","MATCH","2","11","19","18","0.1","0.9","","0.15","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "1","MATCH","2","15","19","18","0.1","0.9","","0.15","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","2","17","19","18","0.1","0.9","","0.15","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "1","MATCH","2","14","19","18","0.1","0.9","","0.1","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.9, doPsib="all", consensusMethod=1)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  'x' must be atomic 
    Rejected :  amUnique(amdataExample2, cutHeight=0.9, doPsib="all", consensusMethod=1)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.9, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","18","0.1","0.9","0.023283064365387","","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","919","919","1012","1020"
  "1","MATCH","1","3","20","18","0.1","0.9","0.625","0.5","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","1","2","20","18","0.1","0.9","0.625","0.45","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","1","8","20","18","0.1","0.9","0.390625","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "1","MATCH","1","10","20","18","0.1","0.9","0.625","0.4","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "1","MATCH","1","4","20","18","0.1","0.9","1","0.3","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","1","5","20","18","0.1","0.9","1","0.3","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","1","19","20","18","0.1","0.9","0.625","0.3","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "1","MATCH","1","6","20","18","0.1","0.9","1","0.25","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "1","MATCH","1","14","20","18","0.1","0.9","0.625","0.25","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","1","11","20","18","0.1","0.9","1","0.2","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "1","MATCH","1","12","20","18","0.1","0.9","1","0.2","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "1","MATCH","1","13","20","18","0.1","0.9","1","0.2","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "1","MATCH","1","15","20","18","0.1","0.9","0.625","0.2","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","1","16","20","18","0.1","0.9","1","0.2","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "1","MATCH","1","17","20","18","0.1","0.9","1","0.2","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "1","MATCH","1","18","20","18","0.1","0.9","1","0.2","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "1","MATCH","1","20","20","18","0.1","0.9","1","0.2","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"
  "1","MATCH","1","9","20","18","0.1","0.9","1","0.15","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "1","MATCH","1","7","20","18","0.1","0.9","1","0.1","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.9, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","18","","","18","0.1","0.9","","","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "1","UNIQUE","2","2","19","18","0.1","0.9","0.0372529029846191","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","2","3","19","18","0.1","0.9","0.0596046447753906","0.95","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","2","10","19","18","0.1","0.9","0.390625","0.45","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "1","MATCH","2","1","19","18","0.1","0.9","0.625","0.4","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "1","MATCH","2","8","19","18","0.1","0.9","0.390625","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "1","MATCH","2","20","19","18","0.1","0.9","0.390625","0.4","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"
  "1","MATCH","2","4","19","18","0.1","0.9","1","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","5","19","18","0.1","0.9","1","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","6","19","18","0.1","0.9","1","0.35","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","12","19","18","0.1","0.9","0.625","0.35","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "1","MATCH","2","9","19","18","0.1","0.9","1","0.3","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "1","MATCH","2","13","19","18","0.1","0.9","0.625","0.3","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "1","MATCH","2","16","19","18","0.1","0.9","1","0.2","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "1","MATCH","2","19","19","18","0.1","0.9","1","0.2","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "1","MATCH","2","7","19","18","0.1","0.9","1","0.15","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "1","MATCH","2","11","19","18","0.1","0.9","1","0.15","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "1","MATCH","2","15","19","18","0.1","0.9","0.625","0.15","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","2","17","19","18","0.1","0.9","1","0.15","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "1","MATCH","2","14","19","18","0.1","0.9","1","0.1","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.9, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","18","","","18","0.1","0.9","","","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "1","UNIQUE","2","2","19","18","0.1","0.9","0.0372529029846191","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","2","3","19","18","0.1","0.9","0.0596046447753906","0.95","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","2","10","19","18","0.1","0.9","0.390625","0.45","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "1","MATCH","2","1","19","18","0.1","0.9","0.625","0.4","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "1","MATCH","2","8","19","18","0.1","0.9","0.390625","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "1","MATCH","2","20","19","18","0.1","0.9","0.390625","0.4","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"
  "1","MATCH","2","4","19","18","0.1","0.9","1","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","5","19","18","0.1","0.9","1","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","6","19","18","0.1","0.9","1","0.35","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","12","19","18","0.1","0.9","0.625","0.35","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "1","MATCH","2","9","19","18","0.1","0.9","1","0.3","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "1","MATCH","2","13","19","18","0.1","0.9","0.625","0.3","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "1","MATCH","2","16","19","18","0.1","0.9","1","0.2","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "1","MATCH","2","19","19","18","0.1","0.9","1","0.2","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "1","MATCH","2","7","19","18","0.1","0.9","1","0.15","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "1","MATCH","2","11","19","18","0.1","0.9","1","0.15","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "1","MATCH","2","15","19","18","0.1","0.9","0.625","0.15","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","2","17","19","18","0.1","0.9","1","0.15","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "1","MATCH","2","14","19","18","0.1","0.9","1","0.1","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.95, doPsib="missing", consensusMethod=1)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  'x' must be atomic 
    Rejected :  amUnique(amdataExample2, cutHeight=0.95, doPsib="missing", consensusMethod=1)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.95, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","19","0.05","0.95","0.023283064365387","","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","919","919","1012","1020"
  "1","MATCH","1","3","20","19","0.05","0.95","","0.5","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","1","2","20","19","0.05","0.95","","0.45","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","1","8","20","19","0.05","0.95","","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "1","MATCH","1","10","20","19","0.05","0.95","","0.4","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "1","MATCH","1","4","20","19","0.05","0.95","","0.3","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","1","5","20","19","0.05","0.95","","0.3","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","1","19","20","19","0.05","0.95","","0.3","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "1","MATCH","1","6","20","19","0.05","0.95","","0.25","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "1","MATCH","1","14","20","19","0.05","0.95","","0.25","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","1","11","20","19","0.05","0.95","","0.2","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "1","MATCH","1","12","20","19","0.05","0.95","","0.2","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "1","MATCH","1","13","20","19","0.05","0.95","","0.2","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "1","MATCH","1","15","20","19","0.05","0.95","","0.2","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","1","16","20","19","0.05","0.95","","0.2","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "1","MATCH","1","17","20","19","0.05","0.95","","0.2","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "1","MATCH","1","18","20","19","0.05","0.95","","0.2","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "1","MATCH","1","20","20","19","0.05","0.95","","0.2","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"
  "1","MATCH","1","9","20","19","0.05","0.95","","0.15","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "1","MATCH","1","7","20","19","0.05","0.95","","0.1","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.95, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","18","","","19","0.05","0.95","","","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "1","UNIQUE","2","2","19","19","0.05","0.95","0.0372529029846191","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","2","3","19","19","0.05","0.95","","0.95","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","2","10","19","19","0.05","0.95","","0.45","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "1","MATCH","2","1","19","19","0.05","0.95","","0.4","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "1","MATCH","2","8","19","19","0.05","0.95","","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "1","MATCH","2","20","19","19","0.05","0.95","","0.4","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"
  "1","MATCH","2","4","19","19","0.05","0.95","","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","5","19","19","0.05","0.95","","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","6","19","19","0.05","0.95","","0.35","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","12","19","19","0.05","0.95","","0.35","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "1","MATCH","2","9","19","19","0.05","0.95","","0.3","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "1","MATCH","2","13","19","19","0.05","0.95","","0.3","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "1","MATCH","2","16","19","19","0.05","0.95","","0.2","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "1","MATCH","2","19","19","19","0.05","0.95","","0.2","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "1","MATCH","2","7","19","19","0.05","0.95","","0.15","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "1","MATCH","2","11","19","19","0.05","0.95","","0.15","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "1","MATCH","2","15","19","19","0.05","0.95","","0.15","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","2","17","19","19","0.05","0.95","","0.15","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "1","MATCH","2","14","19","19","0.05","0.95","","0.1","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.95, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","18","","","19","0.05","0.95","","","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "1","UNIQUE","2","2","19","19","0.05","0.95","0.0372529029846191","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","2","3","19","19","0.05","0.95","","0.95","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","2","10","19","19","0.05","0.95","","0.45","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "1","MATCH","2","1","19","19","0.05","0.95","","0.4","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "1","MATCH","2","8","19","19","0.05","0.95","","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "1","MATCH","2","20","19","19","0.05","0.95","","0.4","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"
  "1","MATCH","2","4","19","19","0.05","0.95","","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","5","19","19","0.05","0.95","","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","6","19","19","0.05","0.95","","0.35","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","12","19","19","0.05","0.95","","0.35","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "1","MATCH","2","9","19","19","0.05","0.95","","0.3","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "1","MATCH","2","13","19","19","0.05","0.95","","0.3","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "1","MATCH","2","16","19","19","0.05","0.95","","0.2","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "1","MATCH","2","19","19","19","0.05","0.95","","0.2","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "1","MATCH","2","7","19","19","0.05","0.95","","0.15","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "1","MATCH","2","11","19","19","0.05","0.95","","0.15","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "1","MATCH","2","15","19","19","0.05","0.95","","0.15","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","2","17","19","19","0.05","0.95","","0.15","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "1","MATCH","2","14","19","19","0.05","0.95","","0.1","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.95, doPsib="all", consensusMethod=1)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  'x' must be atomic 
    Rejected :  amUnique(amdataExample2, cutHeight=0.95, doPsib="all", consensusMethod=1)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.95, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","19","0.05","0.95","0.023283064365387","","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","919","919","1012","1020"
  "1","MATCH","1","3","20","19","0.05","0.95","0.625","0.5","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","1","2","20","19","0.05","0.95","0.625","0.45","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","1","8","20","19","0.05","0.95","0.390625","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "1","MATCH","1","10","20","19","0.05","0.95","0.625","0.4","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "1","MATCH","1","4","20","19","0.05","0.95","1","0.3","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","1","5","20","19","0.05","0.95","1","0.3","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","1","19","20","19","0.05","0.95","0.625","0.3","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "1","MATCH","1","6","20","19","0.05","0.95","1","0.25","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "1","MATCH","1","14","20","19","0.05","0.95","0.625","0.25","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","1","11","20","19","0.05","0.95","1","0.2","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "1","MATCH","1","12","20","19","0.05","0.95","1","0.2","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "1","MATCH","1","13","20","19","0.05","0.95","1","0.2","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "1","MATCH","1","15","20","19","0.05","0.95","0.625","0.2","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","1","16","20","19","0.05","0.95","1","0.2","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "1","MATCH","1","17","20","19","0.05","0.95","1","0.2","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "1","MATCH","1","18","20","19","0.05","0.95","1","0.2","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "1","MATCH","1","20","20","19","0.05","0.95","1","0.2","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"
  "1","MATCH","1","9","20","19","0.05","0.95","1","0.15","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "1","MATCH","1","7","20","19","0.05","0.95","1","0.1","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.95, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","18","","","19","0.05","0.95","","","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "1","UNIQUE","2","2","19","19","0.05","0.95","0.0372529029846191","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","2","3","19","19","0.05","0.95","0.0596046447753906","0.95","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","2","10","19","19","0.05","0.95","0.390625","0.45","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "1","MATCH","2","1","19","19","0.05","0.95","0.625","0.4","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "1","MATCH","2","8","19","19","0.05","0.95","0.390625","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "1","MATCH","2","20","19","19","0.05","0.95","0.390625","0.4","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"
  "1","MATCH","2","4","19","19","0.05","0.95","1","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","5","19","19","0.05","0.95","1","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","6","19","19","0.05","0.95","1","0.35","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","12","19","19","0.05","0.95","0.625","0.35","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "1","MATCH","2","9","19","19","0.05","0.95","1","0.3","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "1","MATCH","2","13","19","19","0.05","0.95","0.625","0.3","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "1","MATCH","2","16","19","19","0.05","0.95","1","0.2","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "1","MATCH","2","19","19","19","0.05","0.95","1","0.2","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "1","MATCH","2","7","19","19","0.05","0.95","1","0.15","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "1","MATCH","2","11","19","19","0.05","0.95","1","0.15","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "1","MATCH","2","15","19","19","0.05","0.95","0.625","0.15","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","2","17","19","19","0.05","0.95","1","0.15","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "1","MATCH","2","14","19","19","0.05","0.95","1","0.1","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.95, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","18","","","19","0.05","0.95","","","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "1","UNIQUE","2","2","19","19","0.05","0.95","0.0372529029846191","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","2","3","19","19","0.05","0.95","0.0596046447753906","0.95","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","2","10","19","19","0.05","0.95","0.390625","0.45","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "1","MATCH","2","1","19","19","0.05","0.95","0.625","0.4","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "1","MATCH","2","8","19","19","0.05","0.95","0.390625","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "1","MATCH","2","20","19","19","0.05","0.95","0.390625","0.4","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"
  "1","MATCH","2","4","19","19","0.05","0.95","1","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","5","19","19","0.05","0.95","1","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","6","19","19","0.05","0.95","1","0.35","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","12","19","19","0.05","0.95","0.625","0.35","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "1","MATCH","2","9","19","19","0.05","0.95","1","0.3","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "1","MATCH","2","13","19","19","0.05","0.95","0.625","0.3","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "1","MATCH","2","16","19","19","0.05","0.95","1","0.2","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "1","MATCH","2","19","19","19","0.05","0.95","1","0.2","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "1","MATCH","2","7","19","19","0.05","0.95","1","0.15","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "1","MATCH","2","11","19","19","0.05","0.95","1","0.15","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "1","MATCH","2","15","19","19","0.05","0.95","0.625","0.15","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","2","17","19","19","0.05","0.95","1","0.15","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "1","MATCH","2","14","19","19","0.05","0.95","1","0.1","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.99, doPsib="missing", consensusMethod=1)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  'x' must be atomic 
    Rejected :  amUnique(amdataExample2, cutHeight=0.99, doPsib="missing", consensusMethod=1)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.99, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","19.8","0.01","0.99","0.023283064365387","","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","919","919","1012","1020"
  "1","MATCH","1","3","20","19.8","0.01","0.99","","0.5","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","1","2","20","19.8","0.01","0.99","","0.45","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","1","8","20","19.8","0.01","0.99","","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "1","MATCH","1","10","20","19.8","0.01","0.99","","0.4","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "1","MATCH","1","4","20","19.8","0.01","0.99","","0.3","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","1","5","20","19.8","0.01","0.99","","0.3","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","1","19","20","19.8","0.01","0.99","","0.3","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "1","MATCH","1","6","20","19.8","0.01","0.99","","0.25","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "1","MATCH","1","14","20","19.8","0.01","0.99","","0.25","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","1","11","20","19.8","0.01","0.99","","0.2","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "1","MATCH","1","12","20","19.8","0.01","0.99","","0.2","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "1","MATCH","1","13","20","19.8","0.01","0.99","","0.2","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "1","MATCH","1","15","20","19.8","0.01","0.99","","0.2","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","1","16","20","19.8","0.01","0.99","","0.2","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "1","MATCH","1","17","20","19.8","0.01","0.99","","0.2","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "1","MATCH","1","18","20","19.8","0.01","0.99","","0.2","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "1","MATCH","1","20","20","19.8","0.01","0.99","","0.2","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"
  "1","MATCH","1","9","20","19.8","0.01","0.99","","0.15","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "1","MATCH","1","7","20","19.8","0.01","0.99","","0.1","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.99, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","2","2","20","19.8","0.01","0.99","0.0372529029846191","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","2","3","20","19.8","0.01","0.99","","0.95","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","2","10","20","19.8","0.01","0.99","","0.45","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "1","MATCH","2","1","20","19.8","0.01","0.99","","0.4","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "1","MATCH","2","8","20","19.8","0.01","0.99","","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "1","MATCH","2","20","20","19.8","0.01","0.99","","0.4","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"
  "1","MATCH","2","4","20","19.8","0.01","0.99","","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","5","20","19.8","0.01","0.99","","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","6","20","19.8","0.01","0.99","","0.35","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","12","20","19.8","0.01","0.99","","0.35","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "1","MATCH","2","9","20","19.8","0.01","0.99","","0.3","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "1","MATCH","2","13","20","19.8","0.01","0.99","","0.3","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "1","MATCH","2","16","20","19.8","0.01","0.99","","0.2","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "1","MATCH","2","19","20","19.8","0.01","0.99","","0.2","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "1","MATCH","2","7","20","19.8","0.01","0.99","","0.15","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "1","MATCH","2","11","20","19.8","0.01","0.99","","0.15","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "1","MATCH","2","15","20","19.8","0.01","0.99","","0.15","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","2","17","20","19.8","0.01","0.99","","0.15","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "1","MATCH","2","14","20","19.8","0.01","0.99","","0.1","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","2","18","20","19.8","0.01","0.99","","0.05","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.99, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","2","2","20","19.8","0.01","0.99","0.0372529029846191","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","2","3","20","19.8","0.01","0.99","","0.95","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","2","10","20","19.8","0.01","0.99","","0.45","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "1","MATCH","2","1","20","19.8","0.01","0.99","","0.4","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "1","MATCH","2","8","20","19.8","0.01","0.99","","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "1","MATCH","2","20","20","19.8","0.01","0.99","","0.4","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"
  "1","MATCH","2","4","20","19.8","0.01","0.99","","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","5","20","19.8","0.01","0.99","","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","6","20","19.8","0.01","0.99","","0.35","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","12","20","19.8","0.01","0.99","","0.35","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "1","MATCH","2","9","20","19.8","0.01","0.99","","0.3","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "1","MATCH","2","13","20","19.8","0.01","0.99","","0.3","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "1","MATCH","2","16","20","19.8","0.01","0.99","","0.2","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "1","MATCH","2","19","20","19.8","0.01","0.99","","0.2","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "1","MATCH","2","7","20","19.8","0.01","0.99","","0.15","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "1","MATCH","2","11","20","19.8","0.01","0.99","","0.15","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "1","MATCH","2","15","20","19.8","0.01","0.99","","0.15","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","2","17","20","19.8","0.01","0.99","","0.15","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "1","MATCH","2","14","20","19.8","0.01","0.99","","0.1","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","2","18","20","19.8","0.01","0.99","","0.05","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.99, doPsib="all", consensusMethod=1)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  'x' must be atomic 
    Rejected :  amUnique(amdataExample2, cutHeight=0.99, doPsib="all", consensusMethod=1)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.99, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","19.8","0.01","0.99","0.023283064365387","","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","919","919","1012","1020"
  "1","MATCH","1","3","20","19.8","0.01","0.99","0.625","0.5","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","1","2","20","19.8","0.01","0.99","0.625","0.45","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","1","8","20","19.8","0.01","0.99","0.390625","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "1","MATCH","1","10","20","19.8","0.01","0.99","0.625","0.4","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "1","MATCH","1","4","20","19.8","0.01","0.99","1","0.3","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","1","5","20","19.8","0.01","0.99","1","0.3","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","1","19","20","19.8","0.01","0.99","0.625","0.3","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "1","MATCH","1","6","20","19.8","0.01","0.99","1","0.25","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "1","MATCH","1","14","20","19.8","0.01","0.99","0.625","0.25","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","1","11","20","19.8","0.01","0.99","1","0.2","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "1","MATCH","1","12","20","19.8","0.01","0.99","1","0.2","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "1","MATCH","1","13","20","19.8","0.01","0.99","1","0.2","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "1","MATCH","1","15","20","19.8","0.01","0.99","0.625","0.2","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","1","16","20","19.8","0.01","0.99","1","0.2","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "1","MATCH","1","17","20","19.8","0.01","0.99","1","0.2","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "1","MATCH","1","18","20","19.8","0.01","0.99","1","0.2","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "1","MATCH","1","20","20","19.8","0.01","0.99","1","0.2","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"
  "1","MATCH","1","9","20","19.8","0.01","0.99","1","0.15","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "1","MATCH","1","7","20","19.8","0.01","0.99","1","0.1","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.99, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","2","2","20","19.8","0.01","0.99","0.0372529029846191","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","2","3","20","19.8","0.01","0.99","0.0596046447753906","0.95","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","2","10","20","19.8","0.01","0.99","0.390625","0.45","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "1","MATCH","2","1","20","19.8","0.01","0.99","0.625","0.4","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "1","MATCH","2","8","20","19.8","0.01","0.99","0.390625","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "1","MATCH","2","20","20","19.8","0.01","0.99","0.390625","0.4","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"
  "1","MATCH","2","4","20","19.8","0.01","0.99","1","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","5","20","19.8","0.01","0.99","1","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","6","20","19.8","0.01","0.99","1","0.35","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","12","20","19.8","0.01","0.99","0.625","0.35","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "1","MATCH","2","9","20","19.8","0.01","0.99","1","0.3","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "1","MATCH","2","13","20","19.8","0.01","0.99","0.625","0.3","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "1","MATCH","2","16","20","19.8","0.01","0.99","1","0.2","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "1","MATCH","2","19","20","19.8","0.01","0.99","1","0.2","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "1","MATCH","2","7","20","19.8","0.01","0.99","1","0.15","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "1","MATCH","2","11","20","19.8","0.01","0.99","1","0.15","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "1","MATCH","2","15","20","19.8","0.01","0.99","0.625","0.15","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","2","17","20","19.8","0.01","0.99","1","0.15","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "1","MATCH","2","14","20","19.8","0.01","0.99","1","0.1","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","2","18","20","19.8","0.01","0.99","1","0.05","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=0.99, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","2","2","20","19.8","0.01","0.99","0.0372529029846191","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","2","3","20","19.8","0.01","0.99","0.0596046447753906","0.95","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","2","10","20","19.8","0.01","0.99","0.390625","0.45","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "1","MATCH","2","1","20","19.8","0.01","0.99","0.625","0.4","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "1","MATCH","2","8","20","19.8","0.01","0.99","0.390625","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "1","MATCH","2","20","20","19.8","0.01","0.99","0.390625","0.4","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"
  "1","MATCH","2","4","20","19.8","0.01","0.99","1","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","5","20","19.8","0.01","0.99","1","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","6","20","19.8","0.01","0.99","1","0.35","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","12","20","19.8","0.01","0.99","0.625","0.35","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "1","MATCH","2","9","20","19.8","0.01","0.99","1","0.3","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "1","MATCH","2","13","20","19.8","0.01","0.99","0.625","0.3","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "1","MATCH","2","16","20","19.8","0.01","0.99","1","0.2","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "1","MATCH","2","19","20","19.8","0.01","0.99","1","0.2","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "1","MATCH","2","7","20","19.8","0.01","0.99","1","0.15","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "1","MATCH","2","11","20","19.8","0.01","0.99","1","0.15","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "1","MATCH","2","15","20","19.8","0.01","0.99","0.625","0.15","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","2","17","20","19.8","0.01","0.99","1","0.15","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "1","MATCH","2","14","20","19.8","0.01","0.99","1","0.1","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","2","18","20","19.8","0.01","0.99","1","0.05","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=1, doPsib="missing", consensusMethod=1)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  'x' must be atomic 
    Rejected :  amUnique(amdataExample2, cutHeight=1, doPsib="missing", consensusMethod=1)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=1, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","20","0","1","0.023283064365387","","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","919","919","1012","1020"
  "1","MATCH","1","3","20","20","0","1","","0.5","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","1","2","20","20","0","1","","0.45","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","1","8","20","20","0","1","","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "1","MATCH","1","10","20","20","0","1","","0.4","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "1","MATCH","1","4","20","20","0","1","","0.3","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","1","5","20","20","0","1","","0.3","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","1","19","20","20","0","1","","0.3","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "1","MATCH","1","6","20","20","0","1","","0.25","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "1","MATCH","1","14","20","20","0","1","","0.25","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","1","11","20","20","0","1","","0.2","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "1","MATCH","1","12","20","20","0","1","","0.2","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "1","MATCH","1","13","20","20","0","1","","0.2","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "1","MATCH","1","15","20","20","0","1","","0.2","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","1","16","20","20","0","1","","0.2","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "1","MATCH","1","17","20","20","0","1","","0.2","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "1","MATCH","1","18","20","20","0","1","","0.2","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "1","MATCH","1","20","20","20","0","1","","0.2","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"
  "1","MATCH","1","9","20","20","0","1","","0.15","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "1","MATCH","1","7","20","20","0","1","","0.1","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=1, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","2","2","20","20","0","1","0.0372529029846191","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","2","3","20","20","0","1","","0.95","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","2","10","20","20","0","1","","0.45","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "1","MATCH","2","1","20","20","0","1","","0.4","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "1","MATCH","2","8","20","20","0","1","","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "1","MATCH","2","20","20","20","0","1","","0.4","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"
  "1","MATCH","2","4","20","20","0","1","","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","5","20","20","0","1","","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","6","20","20","0","1","","0.35","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","12","20","20","0","1","","0.35","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "1","MATCH","2","9","20","20","0","1","","0.3","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "1","MATCH","2","13","20","20","0","1","","0.3","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "1","MATCH","2","16","20","20","0","1","","0.2","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "1","MATCH","2","19","20","20","0","1","","0.2","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "1","MATCH","2","7","20","20","0","1","","0.15","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "1","MATCH","2","11","20","20","0","1","","0.15","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "1","MATCH","2","15","20","20","0","1","","0.15","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","2","17","20","20","0","1","","0.15","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "1","MATCH","2","14","20","20","0","1","","0.1","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","2","18","20","20","0","1","","0.05","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=1, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","2","2","20","20","0","1","0.0372529029846191","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","2","3","20","20","0","1","","0.95","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","2","10","20","20","0","1","","0.45","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "1","MATCH","2","1","20","20","0","1","","0.4","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "1","MATCH","2","8","20","20","0","1","","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "1","MATCH","2","20","20","20","0","1","","0.4","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"
  "1","MATCH","2","4","20","20","0","1","","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","5","20","20","0","1","","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","6","20","20","0","1","","0.35","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","12","20","20","0","1","","0.35","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "1","MATCH","2","9","20","20","0","1","","0.3","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "1","MATCH","2","13","20","20","0","1","","0.3","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "1","MATCH","2","16","20","20","0","1","","0.2","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "1","MATCH","2","19","20","20","0","1","","0.2","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "1","MATCH","2","7","20","20","0","1","","0.15","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "1","MATCH","2","11","20","20","0","1","","0.15","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "1","MATCH","2","15","20","20","0","1","","0.15","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","2","17","20","20","0","1","","0.15","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "1","MATCH","2","14","20","20","0","1","","0.1","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","2","18","20","20","0","1","","0.05","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=1, doPsib="all", consensusMethod=1)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  'x' must be atomic 
    Rejected :  amUnique(amdataExample2, cutHeight=1, doPsib="all", consensusMethod=1)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=1, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","20","0","1","0.023283064365387","","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","919","919","1012","1020"
  "1","MATCH","1","3","20","20","0","1","0.625","0.5","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","1","2","20","20","0","1","0.625","0.45","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","1","8","20","20","0","1","0.390625","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "1","MATCH","1","10","20","20","0","1","0.625","0.4","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "1","MATCH","1","4","20","20","0","1","1","0.3","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","1","5","20","20","0","1","1","0.3","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","1","19","20","20","0","1","0.625","0.3","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "1","MATCH","1","6","20","20","0","1","1","0.25","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "1","MATCH","1","14","20","20","0","1","0.625","0.25","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","1","11","20","20","0","1","1","0.2","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "1","MATCH","1","12","20","20","0","1","1","0.2","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "1","MATCH","1","13","20","20","0","1","1","0.2","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "1","MATCH","1","15","20","20","0","1","0.625","0.2","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","1","16","20","20","0","1","1","0.2","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "1","MATCH","1","17","20","20","0","1","1","0.2","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "1","MATCH","1","18","20","20","0","1","1","0.2","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"
  "1","MATCH","1","20","20","20","0","1","1","0.2","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"
  "1","MATCH","1","9","20","20","0","1","1","0.15","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "1","MATCH","1","7","20","20","0","1","1","0.1","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=1, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","2","2","20","20","0","1","0.0372529029846191","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","2","3","20","20","0","1","0.0596046447753906","0.95","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","2","10","20","20","0","1","0.390625","0.45","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "1","MATCH","2","1","20","20","0","1","0.625","0.4","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "1","MATCH","2","8","20","20","0","1","0.390625","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "1","MATCH","2","20","20","20","0","1","0.390625","0.4","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"
  "1","MATCH","2","4","20","20","0","1","1","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","5","20","20","0","1","1","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","6","20","20","0","1","1","0.35","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","12","20","20","0","1","0.625","0.35","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "1","MATCH","2","9","20","20","0","1","1","0.3","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "1","MATCH","2","13","20","20","0","1","0.625","0.3","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "1","MATCH","2","16","20","20","0","1","1","0.2","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "1","MATCH","2","19","20","20","0","1","1","0.2","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "1","MATCH","2","7","20","20","0","1","1","0.15","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "1","MATCH","2","11","20","20","0","1","1","0.15","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "1","MATCH","2","15","20","20","0","1","0.625","0.15","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","2","17","20","20","0","1","1","0.15","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "1","MATCH","2","14","20","20","0","1","1","0.1","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","2","18","20","20","0","1","1","0.05","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample2, cutHeight=1, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","2","2","20","20","0","1","0.0372529029846191","","AAB","101","116","203","211","305","305","411","416","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","2","3","20","20","0","1","0.0596046447753906","0.95","AAB","101","116","203","211","305","305","411","411","501","512","620","620","705","711","808","815","919","919","1014","1020"
  "1","MATCH","2","10","20","20","0","1","0.390625","0.45","AAG","107","116","212","216","305","305","402","411","501","514","601","607","705","711","808","815","906","919","1004","1004"
  "1","MATCH","2","1","20","20","0","1","0.625","0.4","AAA","101","116","203","216","305","315","402","411","514","514","619","620","706","711","816","820","-99","-99","1012","1020"
  "1","MATCH","2","8","20","20","0","1","0.390625","0.4","AAE","101","116","203","211","305","315","402","412","515","520","601","604","701","707","807","815","906","919","1002","1020"
  "1","MATCH","2","20","20","20","0","1","0.390625","0.4","AAN","111","116","203","211","320","320","411","416","501","520","607","617","707","711","808","820","906","906","1002","1009"
  "1","MATCH","2","4","20","20","0","1","1","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","5","20","20","0","1","1","0.35","AAC","111","116","203","203","305","306","402","416","520","520","610","620","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","6","20","20","0","1","1","0.35","AAC","111","116","203","203","305","305","402","416","520","520","610","610","711","711","808","816","906","916","1002","1014"
  "1","MATCH","2","12","20","20","0","1","0.625","0.35","AAI","107","116","211","214","305","305","411","416","501","505","601","617","711","711","816","819","906","916","1002","1016"
  "1","MATCH","2","9","20","20","0","1","1","0.3","AAF","111","116","211","212","305","305","403","411","501","501","601","616","707","713","808","816","917","917","1014","1016"
  "1","MATCH","2","13","20","20","0","1","0.625","0.3","AAI","107","116","211","214","305","314","411","416","501","505","601","617","711","711","816","819","906","916","1002","1002"
  "1","MATCH","2","16","20","20","0","1","1","0.2","AAK","101","101","211","211","314","316","-99","-99","501","514","607","607","713","718","807","820","906","906","1010","1014"
  "1","MATCH","2","19","20","20","0","1","1","0.2","AAM","111","111","212","216","305","316","402","402","501","520","615","620","705","707","816","820","906","917","1002","1005"
  "1","MATCH","2","7","20","20","0","1","1","0.15","AAD","102","116","211","211","308","320","403","411","515","520","604","604","705","718","807","816","906","916","1002","1002"
  "1","MATCH","2","11","20","20","0","1","1","0.15","AAH","101","107","216","219","305","320","402","403","505","515","607","607","707","711","807","808","906","917","1002","1002"
  "1","MATCH","2","15","20","20","0","1","0.625","0.15","AAJ","107","111","216","219","305","315","411","416","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","2","17","20","20","0","1","1","0.15","AAK","101","101","211","211","314","316","403","411","501","514","607","607","713","718","807","820","906","917","1010","1014"
  "1","MATCH","2","14","20","20","0","1","1","0.1","AAJ","107","111","216","219","305","315","-99","-99","514","514","607","607","711","713","807","808","906","916","1004","1014"
  "1","MATCH","2","18","20","20","0","1","1","0.05","AAL","107","107","211","211","308","314","403","411","514","514","601","601","707","707","807","820","906","906","1002","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0, doPsib="missing", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","0","1","1e-05","7.46355530757712e-05","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "2","UNIQUE","2","2","1","0","1","1e-05","0.000306385971063416","","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "3","UNIQUE","3","3","1","0","1","1e-05","0.000132086396414006","","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "4","UNIQUE","4","4","1","0","1","1e-05","0.000353477155543025","","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "5","UNIQUE","5","5","1","0","1","1e-05","0.000312608615751635","","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "6","UNIQUE","6","6","1","0","1","1e-05","0.000152926926419137","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "7","UNIQUE","7","7","1","0","1","1e-05","0.000203083383659599","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "8","UNIQUE","8","8","2","0","1","1e-05","0.000215688672385705","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "8","MATCH","8","10","2","0","1","1e-05","0.000215688672385705","1","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "9","UNIQUE","9","9","1","0","1","1e-05","0.00535387339932892","","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "10","UNIQUE","11","11","1","0","1","1e-05","0.000320075425931351","","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "11","UNIQUE","12","12","1","0","1","1e-05","0.000419518173781131","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "12","UNIQUE","13","13","1","0","1","1e-05","0.000169687353203284","","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "13","UNIQUE","14","14","2","0","1","1e-05","0.0001553130112997","","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "13","MATCH","14","16","2","0","1","1e-05","0.0001553130112997","1","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "14","UNIQUE","15","15","1","0","1","1e-05","0.00033939856533545","","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "15","UNIQUE","17","17","1","0","1","1e-05","0.000132522256983411","","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "16","UNIQUE","18","18","1","0","1","1e-05","0.000206408545151983","","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "17","UNIQUE","19","19","1","0","1","1e-05","0.00197667620000028","","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "18","UNIQUE","20","20","1","0","1","1e-05","0.000253140271730499","","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","0","1","1e-05","7.46355530757712e-05","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "2","UNIQUE","2","2","1","0","1","1e-05","0.000306385971063416","","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "3","UNIQUE","3","3","1","0","1","1e-05","0.000132086396414006","","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "4","UNIQUE","4","4","1","0","1","1e-05","0.000353477155543025","","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "5","UNIQUE","5","5","1","0","1","1e-05","0.000312608615751635","","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "6","UNIQUE","6","6","1","0","1","1e-05","0.000152926926419137","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "7","UNIQUE","7","7","1","0","1","1e-05","0.000203083383659599","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "8","UNIQUE","8","8","2","0","1","1e-05","0.000215688672385705","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "8","MATCH","8","10","2","0","1","1e-05","0.000215688672385705","1","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "9","UNIQUE","9","9","1","0","1","1e-05","0.00535387339932892","","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "10","UNIQUE","11","11","1","0","1","1e-05","0.000320075425931351","","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "11","UNIQUE","12","12","1","0","1","1e-05","0.000419518173781131","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "12","UNIQUE","13","13","1","0","1","1e-05","0.000169687353203284","","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "13","UNIQUE","14","14","2","0","1","1e-05","0.0001553130112997","","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "13","MATCH","14","16","2","0","1","1e-05","0.0001553130112997","1","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "14","UNIQUE","15","15","1","0","1","1e-05","0.00033939856533545","","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "15","UNIQUE","17","17","1","0","1","1e-05","0.000132522256983411","","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "16","UNIQUE","18","18","1","0","1","1e-05","0.000206408545151983","","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "17","UNIQUE","19","19","1","0","1","1e-05","0.00197667620000028","","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "18","UNIQUE","20","20","1","0","1","1e-05","0.000253140271730499","","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","0","1","1e-05","7.46355530757712e-05","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "2","UNIQUE","2","2","1","0","1","1e-05","0.000306385971063416","","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "3","UNIQUE","3","3","1","0","1","1e-05","0.000132086396414006","","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "4","UNIQUE","4","4","1","0","1","1e-05","0.000353477155543025","","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "5","UNIQUE","5","5","1","0","1","1e-05","0.000312608615751635","","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "6","UNIQUE","6","6","1","0","1","1e-05","0.000152926926419137","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "7","UNIQUE","7","7","1","0","1","1e-05","0.000203083383659599","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "8","UNIQUE","8","8","2","0","1","1e-05","0.000215688672385705","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "8","MATCH","8","10","2","0","1","1e-05","0.000215688672385705","1","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "9","UNIQUE","9","9","1","0","1","1e-05","0.00535387339932892","","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "10","UNIQUE","11","11","1","0","1","1e-05","0.000320075425931351","","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "11","UNIQUE","12","12","1","0","1","1e-05","0.000419518173781131","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "12","UNIQUE","13","13","1","0","1","1e-05","0.000169687353203284","","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "13","UNIQUE","14","14","2","0","1","1e-05","0.0001553130112997","","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "13","MATCH","14","16","2","0","1","1e-05","0.0001553130112997","1","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "14","UNIQUE","15","15","1","0","1","1e-05","0.00033939856533545","","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "15","UNIQUE","17","17","1","0","1","1e-05","0.000132522256983411","","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "16","UNIQUE","18","18","1","0","1","1e-05","0.000206408545151983","","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "17","UNIQUE","19","19","1","0","1","1e-05","0.00197667620000028","","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "18","UNIQUE","20","20","1","0","1","1e-05","0.000253140271730499","","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","0","1","1e-05","7.46355530757712e-05","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "2","UNIQUE","2","2","1","0","1","1e-05","0.000306385971063416","","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "3","UNIQUE","3","3","1","0","1","1e-05","0.000132086396414006","","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "4","UNIQUE","4","4","1","0","1","1e-05","0.000353477155543025","","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "5","UNIQUE","5","5","1","0","1","1e-05","0.000312608615751635","","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "6","UNIQUE","6","6","1","0","1","1e-05","0.000152926926419137","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "7","UNIQUE","7","7","1","0","1","1e-05","0.000203083383659599","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "8","UNIQUE","8","8","2","0","1","1e-05","0.000215688672385705","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "8","MATCH","8","10","2","0","1","1e-05","0.000215688672385705","1","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "9","UNIQUE","9","9","1","0","1","1e-05","0.00535387339932892","","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "10","UNIQUE","11","11","1","0","1","1e-05","0.000320075425931351","","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "11","UNIQUE","12","12","1","0","1","1e-05","0.000419518173781131","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "12","UNIQUE","13","13","1","0","1","1e-05","0.000169687353203284","","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "13","UNIQUE","14","14","2","0","1","1e-05","0.0001553130112997","","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "13","MATCH","14","16","2","0","1","1e-05","0.0001553130112997","1","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "14","UNIQUE","15","15","1","0","1","1e-05","0.00033939856533545","","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "15","UNIQUE","17","17","1","0","1","1e-05","0.000132522256983411","","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "16","UNIQUE","18","18","1","0","1","1e-05","0.000206408545151983","","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "17","UNIQUE","19","19","1","0","1","1e-05","0.00197667620000028","","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "18","UNIQUE","20","20","1","0","1","1e-05","0.000253140271730499","","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0, doPsib="all", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","0","1","1e-05","7.46355530757712e-05","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "2","UNIQUE","2","2","1","0","1","1e-05","0.000306385971063416","","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "3","UNIQUE","3","3","1","0","1","1e-05","0.000132086396414006","","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "4","UNIQUE","4","4","1","0","1","1e-05","0.000353477155543025","","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "5","UNIQUE","5","5","1","0","1","1e-05","0.000312608615751635","","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "6","UNIQUE","6","6","1","0","1","1e-05","0.000152926926419137","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "7","UNIQUE","7","7","1","0","1","1e-05","0.000203083383659599","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "8","UNIQUE","8","8","2","0","1","1e-05","0.000215688672385705","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "8","MATCH","8","10","2","0","1","1e-05","0.000215688672385705","1","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "9","UNIQUE","9","9","1","0","1","1e-05","0.00535387339932892","","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "10","UNIQUE","11","11","1","0","1","1e-05","0.000320075425931351","","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "11","UNIQUE","12","12","1","0","1","1e-05","0.000419518173781131","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "12","UNIQUE","13","13","1","0","1","1e-05","0.000169687353203284","","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "13","UNIQUE","14","14","2","0","1","1e-05","0.0001553130112997","","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "13","MATCH","14","16","2","0","1","1e-05","0.0001553130112997","1","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "14","UNIQUE","15","15","1","0","1","1e-05","0.00033939856533545","","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "15","UNIQUE","17","17","1","0","1","1e-05","0.000132522256983411","","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "16","UNIQUE","18","18","1","0","1","1e-05","0.000206408545151983","","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "17","UNIQUE","19","19","1","0","1","1e-05","0.00197667620000028","","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "18","UNIQUE","20","20","1","0","1","1e-05","0.000253140271730499","","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","0","1","1e-05","7.46355530757712e-05","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "2","UNIQUE","2","2","1","0","1","1e-05","0.000306385971063416","","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "3","UNIQUE","3","3","1","0","1","1e-05","0.000132086396414006","","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "4","UNIQUE","4","4","1","0","1","1e-05","0.000353477155543025","","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "5","UNIQUE","5","5","1","0","1","1e-05","0.000312608615751635","","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "6","UNIQUE","6","6","1","0","1","1e-05","0.000152926926419137","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "7","UNIQUE","7","7","1","0","1","1e-05","0.000203083383659599","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "8","UNIQUE","8","8","2","0","1","1e-05","0.000215688672385705","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "8","MATCH","8","10","2","0","1","1e-05","0.000215688672385705","1","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "9","UNIQUE","9","9","1","0","1","1e-05","0.00535387339932892","","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "10","UNIQUE","11","11","1","0","1","1e-05","0.000320075425931351","","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "11","UNIQUE","12","12","1","0","1","1e-05","0.000419518173781131","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "12","UNIQUE","13","13","1","0","1","1e-05","0.000169687353203284","","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "13","UNIQUE","14","14","2","0","1","1e-05","0.0001553130112997","","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "13","MATCH","14","16","2","0","1","1e-05","0.0001553130112997","1","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "14","UNIQUE","15","15","1","0","1","1e-05","0.00033939856533545","","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "15","UNIQUE","17","17","1","0","1","1e-05","0.000132522256983411","","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "16","UNIQUE","18","18","1","0","1","1e-05","0.000206408545151983","","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "17","UNIQUE","19","19","1","0","1","1e-05","0.00197667620000028","","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "18","UNIQUE","20","20","1","0","1","1e-05","0.000253140271730499","","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","0","1","1e-05","7.46355530757712e-05","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "2","UNIQUE","2","2","1","0","1","1e-05","0.000306385971063416","","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "3","UNIQUE","3","3","1","0","1","1e-05","0.000132086396414006","","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "4","UNIQUE","4","4","1","0","1","1e-05","0.000353477155543025","","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "5","UNIQUE","5","5","1","0","1","1e-05","0.000312608615751635","","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "6","UNIQUE","6","6","1","0","1","1e-05","0.000152926926419137","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "7","UNIQUE","7","7","1","0","1","1e-05","0.000203083383659599","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "8","UNIQUE","8","8","2","0","1","1e-05","0.000215688672385705","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "8","MATCH","8","10","2","0","1","1e-05","0.000215688672385705","1","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "9","UNIQUE","9","9","1","0","1","1e-05","0.00535387339932892","","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "10","UNIQUE","11","11","1","0","1","1e-05","0.000320075425931351","","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "11","UNIQUE","12","12","1","0","1","1e-05","0.000419518173781131","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "12","UNIQUE","13","13","1","0","1","1e-05","0.000169687353203284","","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "13","UNIQUE","14","14","2","0","1","1e-05","0.0001553130112997","","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "13","MATCH","14","16","2","0","1","1e-05","0.0001553130112997","1","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "14","UNIQUE","15","15","1","0","1","1e-05","0.00033939856533545","","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "15","UNIQUE","17","17","1","0","1","1e-05","0.000132522256983411","","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "16","UNIQUE","18","18","1","0","1","1e-05","0.000206408545151983","","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "17","UNIQUE","19","19","1","0","1","1e-05","0.00197667620000028","","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "18","UNIQUE","20","20","1","0","1","1e-05","0.000253140271730499","","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","0","1","1e-05","7.46355530757712e-05","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "2","UNIQUE","2","2","1","0","1","1e-05","0.000306385971063416","","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "3","UNIQUE","3","3","1","0","1","1e-05","0.000132086396414006","","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "4","UNIQUE","4","4","1","0","1","1e-05","0.000353477155543025","","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "5","UNIQUE","5","5","1","0","1","1e-05","0.000312608615751635","","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "6","UNIQUE","6","6","1","0","1","1e-05","0.000152926926419137","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "7","UNIQUE","7","7","1","0","1","1e-05","0.000203083383659599","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "8","UNIQUE","8","8","2","0","1","1e-05","0.000215688672385705","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "8","MATCH","8","10","2","0","1","1e-05","0.000215688672385705","1","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "9","UNIQUE","9","9","1","0","1","1e-05","0.00535387339932892","","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "10","UNIQUE","11","11","1","0","1","1e-05","0.000320075425931351","","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "11","UNIQUE","12","12","1","0","1","1e-05","0.000419518173781131","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "12","UNIQUE","13","13","1","0","1","1e-05","0.000169687353203284","","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "13","UNIQUE","14","14","2","0","1","1e-05","0.0001553130112997","","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "13","MATCH","14","16","2","0","1","1e-05","0.0001553130112997","1","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "14","UNIQUE","15","15","1","0","1","1e-05","0.00033939856533545","","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "15","UNIQUE","17","17","1","0","1","1e-05","0.000132522256983411","","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "16","UNIQUE","18","18","1","0","1","1e-05","0.000206408545151983","","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "17","UNIQUE","19","19","1","0","1","1e-05","0.00197667620000028","","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "18","UNIQUE","20","20","1","0","1","1e-05","0.000253140271730499","","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.3, doPsib="missing", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","3","6","0.7","0.3","7.17802578525562e-05","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","3","6","0.7","0.3","0.000124534423262266","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","3","6","0.7","0.3","0.00029408128866752","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "2","UNIQUE","4","4","2","6","0.7","0.3","0.000514309492031686","","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "2","MATCH","4","5","2","6","0.7","0.3","","0.85","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "3","UNIQUE","6","6","2","6","0.7","0.3","0.000243002760354622","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "3","MATCH","6","7","2","6","0.7","0.3","","0.95","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "4","UNIQUE","8","8","5","6","0.7","0.3","0.000160488528310609","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "4","MATCH","8","10","5","6","0.7","0.3","0.000160488528310609","1","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "4","MATCH","8","11","5","6","0.7","0.3","","0.9","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "4","MATCH","8","12","5","6","0.7","0.3","","0.9","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "4","MATCH","8","9","5","6","0.7","0.3","","0.75","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "5","UNIQUE","13","13","4","6","0.7","0.3","0.00014390561009062","","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","14","4","6","0.7","0.3","","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","16","4","6","0.7","0.3","","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","15","4","6","0.7","0.3","","0.9","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "6","UNIQUE","17","17","1","6","0.7","0.3","0.000260657288170129","","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "7","UNIQUE","18","18","3","6","0.7","0.3","0.00021062480158753","","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "7","MATCH","18","20","3","6","0.7","0.3","","0.9","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"
  "7","MATCH","18","19","3","6","0.7","0.3","","0.8","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.3, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","3","6","0.7","0.3","6.7985629025829e-05","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","3","6","0.7","0.3","0.000124534423262266","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","3","6","0.7","0.3","0.00029408128866752","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "2","UNIQUE","4","4","2","6","0.7","0.3","0.000514309492031686","","AAB","103","112","202","206","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "2","MATCH","4","5","2","6","0.7","0.3","","0.9","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "3","UNIQUE","6","6","2","6","0.7","0.3","0.000249271988288299","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "3","MATCH","6","7","2","6","0.7","0.3","","0.95","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "4","UNIQUE","8","8","5","6","0.7","0.3","0.000152004379408032","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "4","MATCH","8","10","5","6","0.7","0.3","0.000152004379408032","1","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "4","MATCH","8","11","5","6","0.7","0.3","","0.9","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "4","MATCH","8","12","5","6","0.7","0.3","","0.9","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "4","MATCH","8","9","5","6","0.7","0.3","","0.75","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "5","UNIQUE","13","13","4","6","0.7","0.3","0.000141749751270222","","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","14","4","6","0.7","0.3","","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","16","4","6","0.7","0.3","","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","15","4","6","0.7","0.3","","0.9","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "6","UNIQUE","17","17","1","6","0.7","0.3","0.000246877765928532","","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "7","UNIQUE","18","18","3","6","0.7","0.3","0.000207469418444294","","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "7","MATCH","18","20","3","6","0.7","0.3","","0.9","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"
  "7","MATCH","18","19","3","6","0.7","0.3","","0.8","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.3, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","3","6","0.7","0.3","7.17802578525562e-05","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","3","6","0.7","0.3","0.000124534423262266","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","3","6","0.7","0.3","0.00029408128866752","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "2","UNIQUE","4","4","2","6","0.7","0.3","0.000514309492031686","","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "2","MATCH","4","5","2","6","0.7","0.3","","0.85","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "3","UNIQUE","6","6","2","6","0.7","0.3","0.000243002760354622","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "3","MATCH","6","7","2","6","0.7","0.3","","0.95","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "4","UNIQUE","8","8","5","6","0.7","0.3","0.000160488528310609","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "4","MATCH","8","10","5","6","0.7","0.3","0.000160488528310609","1","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "4","MATCH","8","11","5","6","0.7","0.3","","0.9","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "4","MATCH","8","12","5","6","0.7","0.3","","0.9","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "4","MATCH","8","9","5","6","0.7","0.3","","0.75","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "5","UNIQUE","13","13","4","6","0.7","0.3","0.00014390561009062","","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","14","4","6","0.7","0.3","","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","16","4","6","0.7","0.3","","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","15","4","6","0.7","0.3","","0.9","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "6","UNIQUE","17","17","1","6","0.7","0.3","0.000260657288170129","","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "7","UNIQUE","18","18","3","6","0.7","0.3","0.00021062480158753","","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "7","MATCH","18","20","3","6","0.7","0.3","","0.9","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"
  "7","MATCH","18","19","3","6","0.7","0.3","","0.8","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.3, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","3","6","0.7","0.3","6.7985629025829e-05","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","3","6","0.7","0.3","0.000124534423262266","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","3","6","0.7","0.3","0.00029408128866752","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "2","UNIQUE","4","4","2","6","0.7","0.3","0.000514309492031686","","AAB","103","112","202","206","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "2","MATCH","4","5","2","6","0.7","0.3","","0.9","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "3","UNIQUE","6","6","2","6","0.7","0.3","0.000249271988288299","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "3","MATCH","6","7","2","6","0.7","0.3","","0.95","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "4","UNIQUE","8","8","5","6","0.7","0.3","0.000152004379408032","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "4","MATCH","8","10","5","6","0.7","0.3","0.000152004379408032","1","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "4","MATCH","8","11","5","6","0.7","0.3","","0.9","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "4","MATCH","8","12","5","6","0.7","0.3","","0.9","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "4","MATCH","8","9","5","6","0.7","0.3","","0.75","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "5","UNIQUE","13","13","4","6","0.7","0.3","0.000141749751270222","","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","14","4","6","0.7","0.3","","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","16","4","6","0.7","0.3","","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","15","4","6","0.7","0.3","","0.9","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "6","UNIQUE","17","17","1","6","0.7","0.3","0.000246877765928532","","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "7","UNIQUE","18","18","3","6","0.7","0.3","0.000207469418444294","","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "7","MATCH","18","20","3","6","0.7","0.3","","0.9","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"
  "7","MATCH","18","19","3","6","0.7","0.3","","0.8","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.3, doPsib="all", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","3","6","0.7","0.3","7.17802578525562e-05","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","3","6","0.7","0.3","0.000124534423262266","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","3","6","0.7","0.3","0.00029408128866752","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "2","UNIQUE","4","4","2","6","0.7","0.3","0.000514309492031686","","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "2","MATCH","4","5","2","6","0.7","0.3","0.00229613383736665","0.85","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "3","UNIQUE","6","6","2","6","0.7","0.3","0.000243002760354622","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "3","MATCH","6","7","2","6","0.7","0.3","0.00074419595358603","0.95","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "4","UNIQUE","8","8","5","6","0.7","0.3","0.000160488528310609","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "4","MATCH","8","10","5","6","0.7","0.3","0.000160488528310609","1","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "4","MATCH","8","11","5","6","0.7","0.3","0.000604696221745305","0.9","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "4","MATCH","8","12","5","6","0.7","0.3","0.000823058746264443","0.9","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "4","MATCH","8","9","5","6","0.7","0.3","0.012243324557236","0.75","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "5","UNIQUE","13","13","4","6","0.7","0.3","0.00014390561009062","","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","14","4","6","0.7","0.3","0.000229611167346806","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","16","4","6","0.7","0.3","0.000229611167346806","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","15","4","6","0.7","0.3","0.000450037887999739","0.9","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "6","UNIQUE","17","17","1","6","0.7","0.3","0.000260657288170129","","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "7","UNIQUE","18","18","3","6","0.7","0.3","0.00021062480158753","","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "7","MATCH","18","20","3","6","0.7","0.3","0.00118509179660373","0.9","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"
  "7","MATCH","18","19","3","6","0.7","0.3","0.0101559280482581","0.8","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.3, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","3","6","0.7","0.3","6.7985629025829e-05","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","3","6","0.7","0.3","0.000124534423262266","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","3","6","0.7","0.3","0.00029408128866752","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "2","UNIQUE","4","4","2","6","0.7","0.3","0.000514309492031686","","AAB","103","112","202","206","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "2","MATCH","4","5","2","6","0.7","0.3","0.00107777710733537","0.9","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "3","UNIQUE","6","6","2","6","0.7","0.3","0.000249271988288299","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "3","MATCH","6","7","2","6","0.7","0.3","0.000763395464132916","0.95","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "4","UNIQUE","8","8","5","6","0.7","0.3","0.000152004379408032","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "4","MATCH","8","10","5","6","0.7","0.3","0.000152004379408032","1","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "4","MATCH","8","11","5","6","0.7","0.3","0.000604696221745305","0.9","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "4","MATCH","8","12","5","6","0.7","0.3","0.000779548141286116","0.9","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "4","MATCH","8","9","5","6","0.7","0.3","0.0115960870898631","0.75","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "5","UNIQUE","13","13","4","6","0.7","0.3","0.000141749751270222","","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","14","4","6","0.7","0.3","0.000229611167346806","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","16","4","6","0.7","0.3","0.000229611167346806","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","15","4","6","0.7","0.3","0.000450037887999739","0.9","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "6","UNIQUE","17","17","1","6","0.7","0.3","0.000246877765928532","","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "7","UNIQUE","18","18","3","6","0.7","0.3","0.000207469418444294","","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "7","MATCH","18","20","3","6","0.7","0.3","0.0011673378633062","0.9","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"
  "7","MATCH","18","19","3","6","0.7","0.3","0.0100037814637825","0.8","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.3, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","3","6","0.7","0.3","7.17802578525562e-05","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","3","6","0.7","0.3","0.000124534423262266","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","3","6","0.7","0.3","0.00029408128866752","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "2","UNIQUE","4","4","2","6","0.7","0.3","0.000514309492031686","","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "2","MATCH","4","5","2","6","0.7","0.3","0.00229613383736665","0.85","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "3","UNIQUE","6","6","2","6","0.7","0.3","0.000243002760354622","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "3","MATCH","6","7","2","6","0.7","0.3","0.00074419595358603","0.95","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "4","UNIQUE","8","8","5","6","0.7","0.3","0.000160488528310609","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "4","MATCH","8","10","5","6","0.7","0.3","0.000160488528310609","1","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "4","MATCH","8","11","5","6","0.7","0.3","0.000604696221745305","0.9","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "4","MATCH","8","12","5","6","0.7","0.3","0.000823058746264443","0.9","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "4","MATCH","8","9","5","6","0.7","0.3","0.012243324557236","0.75","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "5","UNIQUE","13","13","4","6","0.7","0.3","0.00014390561009062","","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","14","4","6","0.7","0.3","0.000229611167346806","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","16","4","6","0.7","0.3","0.000229611167346806","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","15","4","6","0.7","0.3","0.000450037887999739","0.9","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "6","UNIQUE","17","17","1","6","0.7","0.3","0.000260657288170129","","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "7","UNIQUE","18","18","3","6","0.7","0.3","0.00021062480158753","","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "7","MATCH","18","20","3","6","0.7","0.3","0.00118509179660373","0.9","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"
  "7","MATCH","18","19","3","6","0.7","0.3","0.0101559280482581","0.8","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.3, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","3","6","0.7","0.3","6.7985629025829e-05","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","3","6","0.7","0.3","0.000124534423262266","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","3","6","0.7","0.3","0.00029408128866752","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "2","UNIQUE","4","4","2","6","0.7","0.3","0.000514309492031686","","AAB","103","112","202","206","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "2","MATCH","4","5","2","6","0.7","0.3","0.00107777710733537","0.9","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "3","UNIQUE","6","6","2","6","0.7","0.3","0.000249271988288299","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "3","MATCH","6","7","2","6","0.7","0.3","0.000763395464132916","0.95","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "4","UNIQUE","8","8","5","6","0.7","0.3","0.000152004379408032","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "4","MATCH","8","10","5","6","0.7","0.3","0.000152004379408032","1","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "4","MATCH","8","11","5","6","0.7","0.3","0.000604696221745305","0.9","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "4","MATCH","8","12","5","6","0.7","0.3","0.000779548141286116","0.9","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "4","MATCH","8","9","5","6","0.7","0.3","0.0115960870898631","0.75","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "5","UNIQUE","13","13","4","6","0.7","0.3","0.000141749751270222","","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","14","4","6","0.7","0.3","0.000229611167346806","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","16","4","6","0.7","0.3","0.000229611167346806","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","15","4","6","0.7","0.3","0.000450037887999739","0.9","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "6","UNIQUE","17","17","1","6","0.7","0.3","0.000246877765928532","","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "7","UNIQUE","18","18","3","6","0.7","0.3","0.000207469418444294","","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "7","MATCH","18","20","3","6","0.7","0.3","0.0011673378633062","0.9","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"
  "7","MATCH","18","19","3","6","0.7","0.3","0.0100037814637825","0.8","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.5, doPsib="missing", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","3","10","0.5","0.5","7.17802578525562e-05","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","3","10","0.5","0.5","0.000124534423262266","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","3","10","0.5","0.5","0.00029408128866752","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "2","CHECK_UNIQUE","4","4","2","10","0.5","0.5","0.000514309492031686","","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "2","MULTIPLE_MATCH","4","5","2","10","0.5","0.5","","0.85","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "3","UNIQUE","6","6","2","10","0.5","0.5","0.000243002760354622","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "3","MATCH","6","7","2","10","0.5","0.5","","0.95","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "4","CHECK_UNIQUE","8","8","7","10","0.5","0.5","0.000160488528310609","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "4","MULTIPLE_MATCH","8","10","7","10","0.5","0.5","0.000160488528310609","1","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "4","MATCH","8","11","7","10","0.5","0.5","","0.9","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "4","MULTIPLE_MATCH","8","12","7","10","0.5","0.5","","0.9","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "4","MULTIPLE_MATCH","8","9","7","10","0.5","0.5","","0.75","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "4","MULTIPLE_MATCH","8","5","7","10","0.5","0.5","","0.5","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "4","MULTIPLE_MATCH","8","17","7","10","0.5","0.5","","0.5","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "5","CHECK_UNIQUE","13","13","6","10","0.5","0.5","0.00014390561009062","","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","14","6","10","0.5","0.5","","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","16","6","10","0.5","0.5","","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","15","6","10","0.5","0.5","","0.9","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "5","MULTIPLE_MATCH","13","19","6","10","0.5","0.5","","0.55","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "5","MULTIPLE_MATCH","13","20","6","10","0.5","0.5","","0.5","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"
  "6","CHECK_UNIQUE","17","17","5","10","0.5","0.5","0.000260657288170129","","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "6","MULTIPLE_MATCH","17","8","5","10","0.5","0.5","","0.5","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "6","MULTIPLE_MATCH","17","9","5","10","0.5","0.5","","0.5","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "6","MULTIPLE_MATCH","17","10","5","10","0.5","0.5","","0.5","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "6","MULTIPLE_MATCH","17","12","5","10","0.5","0.5","","0.5","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "7","CHECK_UNIQUE","18","18","3","10","0.5","0.5","0.00021062480158753","","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "7","MULTIPLE_MATCH","18","20","3","10","0.5","0.5","","0.9","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"
  "7","MULTIPLE_MATCH","18","19","3","10","0.5","0.5","","0.8","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.5, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","3","10","0.5","0.5","6.7985629025829e-05","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","3","10","0.5","0.5","0.000124534423262266","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","3","10","0.5","0.5","0.00029408128866752","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "2","CHECK_UNIQUE","4","4","2","10","0.5","0.5","0.000514309492031686","","AAB","103","112","202","206","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "2","MULTIPLE_MATCH","4","5","2","10","0.5","0.5","","0.9","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "3","UNIQUE","6","6","2","10","0.5","0.5","0.000249271988288299","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "3","MATCH","6","7","2","10","0.5","0.5","","0.95","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "4","CHECK_UNIQUE","8","8","7","10","0.5","0.5","0.000152004379408032","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "4","MULTIPLE_MATCH","8","10","7","10","0.5","0.5","0.000152004379408032","1","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "4","MATCH","8","11","7","10","0.5","0.5","","0.9","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "4","MULTIPLE_MATCH","8","12","7","10","0.5","0.5","","0.9","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "4","MULTIPLE_MATCH","8","9","7","10","0.5","0.5","","0.75","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "4","MULTIPLE_MATCH","8","5","7","10","0.5","0.5","","0.5","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "4","MULTIPLE_MATCH","8","17","7","10","0.5","0.5","","0.5","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "5","CHECK_UNIQUE","13","13","6","10","0.5","0.5","0.000141749751270222","","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","14","6","10","0.5","0.5","","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","16","6","10","0.5","0.5","","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","15","6","10","0.5","0.5","","0.9","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "5","MULTIPLE_MATCH","13","19","6","10","0.5","0.5","","0.55","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "5","MULTIPLE_MATCH","13","20","6","10","0.5","0.5","","0.5","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"
  "6","CHECK_UNIQUE","17","17","5","10","0.5","0.5","0.000246877765928532","","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "6","MULTIPLE_MATCH","17","8","5","10","0.5","0.5","","0.5","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "6","MULTIPLE_MATCH","17","9","5","10","0.5","0.5","","0.5","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "6","MULTIPLE_MATCH","17","10","5","10","0.5","0.5","","0.5","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "6","MULTIPLE_MATCH","17","12","5","10","0.5","0.5","","0.5","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "7","CHECK_UNIQUE","18","18","3","10","0.5","0.5","0.000207469418444294","","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "7","MULTIPLE_MATCH","18","20","3","10","0.5","0.5","","0.9","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"
  "7","MULTIPLE_MATCH","18","19","3","10","0.5","0.5","","0.8","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.5, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","3","10","0.5","0.5","7.17802578525562e-05","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","3","10","0.5","0.5","0.000124534423262266","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","3","10","0.5","0.5","0.00029408128866752","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "2","CHECK_UNIQUE","4","4","2","10","0.5","0.5","0.000514309492031686","","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "2","MULTIPLE_MATCH","4","5","2","10","0.5","0.5","","0.85","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "3","UNIQUE","6","6","2","10","0.5","0.5","0.000243002760354622","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "3","MATCH","6","7","2","10","0.5","0.5","","0.95","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "4","CHECK_UNIQUE","8","8","7","10","0.5","0.5","0.000160488528310609","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "4","MULTIPLE_MATCH","8","10","7","10","0.5","0.5","0.000160488528310609","1","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "4","MATCH","8","11","7","10","0.5","0.5","","0.9","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "4","MULTIPLE_MATCH","8","12","7","10","0.5","0.5","","0.9","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "4","MULTIPLE_MATCH","8","9","7","10","0.5","0.5","","0.75","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "4","MULTIPLE_MATCH","8","5","7","10","0.5","0.5","","0.5","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "4","MULTIPLE_MATCH","8","17","7","10","0.5","0.5","","0.5","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "5","CHECK_UNIQUE","13","13","6","10","0.5","0.5","0.00014390561009062","","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","14","6","10","0.5","0.5","","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","16","6","10","0.5","0.5","","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","15","6","10","0.5","0.5","","0.9","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "5","MULTIPLE_MATCH","13","19","6","10","0.5","0.5","","0.55","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "5","MULTIPLE_MATCH","13","20","6","10","0.5","0.5","","0.5","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"
  "6","CHECK_UNIQUE","17","17","5","10","0.5","0.5","0.000260657288170129","","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "6","MULTIPLE_MATCH","17","8","5","10","0.5","0.5","","0.5","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "6","MULTIPLE_MATCH","17","9","5","10","0.5","0.5","","0.5","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "6","MULTIPLE_MATCH","17","10","5","10","0.5","0.5","","0.5","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "6","MULTIPLE_MATCH","17","12","5","10","0.5","0.5","","0.5","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "7","CHECK_UNIQUE","18","18","3","10","0.5","0.5","0.00021062480158753","","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "7","MULTIPLE_MATCH","18","20","3","10","0.5","0.5","","0.9","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"
  "7","MULTIPLE_MATCH","18","19","3","10","0.5","0.5","","0.8","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.5, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","3","10","0.5","0.5","6.7985629025829e-05","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","3","10","0.5","0.5","0.000124534423262266","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","3","10","0.5","0.5","0.00029408128866752","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "2","CHECK_UNIQUE","4","4","2","10","0.5","0.5","0.000514309492031686","","AAB","103","112","202","206","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "2","MULTIPLE_MATCH","4","5","2","10","0.5","0.5","","0.9","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "3","UNIQUE","6","6","2","10","0.5","0.5","0.000249271988288299","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "3","MATCH","6","7","2","10","0.5","0.5","","0.95","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "4","CHECK_UNIQUE","8","8","7","10","0.5","0.5","0.000152004379408032","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "4","MULTIPLE_MATCH","8","10","7","10","0.5","0.5","0.000152004379408032","1","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "4","MATCH","8","11","7","10","0.5","0.5","","0.9","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "4","MULTIPLE_MATCH","8","12","7","10","0.5","0.5","","0.9","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "4","MULTIPLE_MATCH","8","9","7","10","0.5","0.5","","0.75","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "4","MULTIPLE_MATCH","8","5","7","10","0.5","0.5","","0.5","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "4","MULTIPLE_MATCH","8","17","7","10","0.5","0.5","","0.5","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "5","CHECK_UNIQUE","13","13","6","10","0.5","0.5","0.000141749751270222","","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","14","6","10","0.5","0.5","","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","16","6","10","0.5","0.5","","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","15","6","10","0.5","0.5","","0.9","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "5","MULTIPLE_MATCH","13","19","6","10","0.5","0.5","","0.55","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "5","MULTIPLE_MATCH","13","20","6","10","0.5","0.5","","0.5","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"
  "6","CHECK_UNIQUE","17","17","5","10","0.5","0.5","0.000246877765928532","","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "6","MULTIPLE_MATCH","17","8","5","10","0.5","0.5","","0.5","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "6","MULTIPLE_MATCH","17","9","5","10","0.5","0.5","","0.5","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "6","MULTIPLE_MATCH","17","10","5","10","0.5","0.5","","0.5","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "6","MULTIPLE_MATCH","17","12","5","10","0.5","0.5","","0.5","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "7","CHECK_UNIQUE","18","18","3","10","0.5","0.5","0.000207469418444294","","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "7","MULTIPLE_MATCH","18","20","3","10","0.5","0.5","","0.9","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"
  "7","MULTIPLE_MATCH","18","19","3","10","0.5","0.5","","0.8","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.5, doPsib="all", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","3","10","0.5","0.5","7.17802578525562e-05","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","3","10","0.5","0.5","0.000124534423262266","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","3","10","0.5","0.5","0.00029408128866752","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "2","CHECK_UNIQUE","4","4","2","10","0.5","0.5","0.000514309492031686","","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "2","MULTIPLE_MATCH","4","5","2","10","0.5","0.5","0.00229613383736665","0.85","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "3","UNIQUE","6","6","2","10","0.5","0.5","0.000243002760354622","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "3","MATCH","6","7","2","10","0.5","0.5","0.00074419595358603","0.95","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "4","CHECK_UNIQUE","8","8","7","10","0.5","0.5","0.000160488528310609","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "4","MULTIPLE_MATCH","8","10","7","10","0.5","0.5","0.000160488528310609","1","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "4","MATCH","8","11","7","10","0.5","0.5","0.000604696221745305","0.9","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "4","MULTIPLE_MATCH","8","12","7","10","0.5","0.5","0.000823058746264443","0.9","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "4","MULTIPLE_MATCH","8","9","7","10","0.5","0.5","0.012243324557236","0.75","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "4","MULTIPLE_MATCH","8","5","7","10","0.5","0.5","0.423469387755102","0.5","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "4","MULTIPLE_MATCH","8","17","7","10","0.5","0.5","0.145331290998542","0.5","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "5","CHECK_UNIQUE","13","13","6","10","0.5","0.5","0.00014390561009062","","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","14","6","10","0.5","0.5","0.000229611167346806","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","16","6","10","0.5","0.5","0.000229611167346806","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","15","6","10","0.5","0.5","0.000450037887999739","0.9","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "5","MULTIPLE_MATCH","13","19","6","10","0.5","0.5","0.127962429391399","0.55","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "5","MULTIPLE_MATCH","13","20","6","10","0.5","0.5","0.127962429391399","0.5","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"
  "6","CHECK_UNIQUE","17","17","5","10","0.5","0.5","0.000260657288170129","","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "6","MULTIPLE_MATCH","17","8","5","10","0.5","0.5","0.145331290998542","0.5","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "6","MULTIPLE_MATCH","17","9","5","10","0.5","0.5","0.277901785714286","0.5","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "6","MULTIPLE_MATCH","17","10","5","10","0.5","0.5","0.145331290998542","0.5","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "6","MULTIPLE_MATCH","17","12","5","10","0.5","0.5","0.145331290998542","0.5","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "7","CHECK_UNIQUE","18","18","3","10","0.5","0.5","0.00021062480158753","","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "7","MULTIPLE_MATCH","18","20","3","10","0.5","0.5","0.00118509179660373","0.9","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"
  "7","MULTIPLE_MATCH","18","19","3","10","0.5","0.5","0.0101559280482581","0.8","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.5, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","3","10","0.5","0.5","6.7985629025829e-05","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","3","10","0.5","0.5","0.000124534423262266","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","3","10","0.5","0.5","0.00029408128866752","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "2","CHECK_UNIQUE","4","4","2","10","0.5","0.5","0.000514309492031686","","AAB","103","112","202","206","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "2","MULTIPLE_MATCH","4","5","2","10","0.5","0.5","0.00107777710733537","0.9","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "3","UNIQUE","6","6","2","10","0.5","0.5","0.000249271988288299","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "3","MATCH","6","7","2","10","0.5","0.5","0.000763395464132916","0.95","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "4","CHECK_UNIQUE","8","8","7","10","0.5","0.5","0.000152004379408032","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "4","MULTIPLE_MATCH","8","10","7","10","0.5","0.5","0.000152004379408032","1","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "4","MATCH","8","11","7","10","0.5","0.5","0.000604696221745305","0.9","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "4","MULTIPLE_MATCH","8","12","7","10","0.5","0.5","0.000779548141286116","0.9","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "4","MULTIPLE_MATCH","8","9","7","10","0.5","0.5","0.0115960870898631","0.75","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "4","MULTIPLE_MATCH","8","5","7","10","0.5","0.5","0.423469387755102","0.5","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "4","MULTIPLE_MATCH","8","17","7","10","0.5","0.5","0.137648422160409","0.5","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "5","CHECK_UNIQUE","13","13","6","10","0.5","0.5","0.000141749751270222","","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","14","6","10","0.5","0.5","0.000229611167346806","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","16","6","10","0.5","0.5","0.000229611167346806","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","15","6","10","0.5","0.5","0.000450037887999739","0.9","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "5","MULTIPLE_MATCH","13","19","6","10","0.5","0.5","0.12604541634438","0.55","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "5","MULTIPLE_MATCH","13","20","6","10","0.5","0.5","0.12604541634438","0.5","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"
  "6","CHECK_UNIQUE","17","17","5","10","0.5","0.5","0.000246877765928532","","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "6","MULTIPLE_MATCH","17","8","5","10","0.5","0.5","0.137648422160409","0.5","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "6","MULTIPLE_MATCH","17","9","5","10","0.5","0.5","0.263210641399417","0.5","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "6","MULTIPLE_MATCH","17","10","5","10","0.5","0.5","0.137648422160409","0.5","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "6","MULTIPLE_MATCH","17","12","5","10","0.5","0.5","0.137648422160409","0.5","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "7","CHECK_UNIQUE","18","18","3","10","0.5","0.5","0.000207469418444294","","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "7","MULTIPLE_MATCH","18","20","3","10","0.5","0.5","0.0011673378633062","0.9","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"
  "7","MULTIPLE_MATCH","18","19","3","10","0.5","0.5","0.0100037814637825","0.8","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.5, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","3","10","0.5","0.5","7.17802578525562e-05","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","3","10","0.5","0.5","0.000124534423262266","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","3","10","0.5","0.5","0.00029408128866752","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "2","CHECK_UNIQUE","4","4","2","10","0.5","0.5","0.000514309492031686","","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "2","MULTIPLE_MATCH","4","5","2","10","0.5","0.5","0.00229613383736665","0.85","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "3","UNIQUE","6","6","2","10","0.5","0.5","0.000243002760354622","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "3","MATCH","6","7","2","10","0.5","0.5","0.00074419595358603","0.95","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "4","CHECK_UNIQUE","8","8","7","10","0.5","0.5","0.000160488528310609","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "4","MULTIPLE_MATCH","8","10","7","10","0.5","0.5","0.000160488528310609","1","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "4","MATCH","8","11","7","10","0.5","0.5","0.000604696221745305","0.9","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "4","MULTIPLE_MATCH","8","12","7","10","0.5","0.5","0.000823058746264443","0.9","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "4","MULTIPLE_MATCH","8","9","7","10","0.5","0.5","0.012243324557236","0.75","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "4","MULTIPLE_MATCH","8","5","7","10","0.5","0.5","0.423469387755102","0.5","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "4","MULTIPLE_MATCH","8","17","7","10","0.5","0.5","0.145331290998542","0.5","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "5","CHECK_UNIQUE","13","13","6","10","0.5","0.5","0.00014390561009062","","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","14","6","10","0.5","0.5","0.000229611167346806","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","16","6","10","0.5","0.5","0.000229611167346806","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","15","6","10","0.5","0.5","0.000450037887999739","0.9","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "5","MULTIPLE_MATCH","13","19","6","10","0.5","0.5","0.127962429391399","0.55","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "5","MULTIPLE_MATCH","13","20","6","10","0.5","0.5","0.127962429391399","0.5","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"
  "6","CHECK_UNIQUE","17","17","5","10","0.5","0.5","0.000260657288170129","","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "6","MULTIPLE_MATCH","17","8","5","10","0.5","0.5","0.145331290998542","0.5","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "6","MULTIPLE_MATCH","17","9","5","10","0.5","0.5","0.277901785714286","0.5","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "6","MULTIPLE_MATCH","17","10","5","10","0.5","0.5","0.145331290998542","0.5","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "6","MULTIPLE_MATCH","17","12","5","10","0.5","0.5","0.145331290998542","0.5","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "7","CHECK_UNIQUE","18","18","3","10","0.5","0.5","0.00021062480158753","","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "7","MULTIPLE_MATCH","18","20","3","10","0.5","0.5","0.00118509179660373","0.9","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"
  "7","MULTIPLE_MATCH","18","19","3","10","0.5","0.5","0.0101559280482581","0.8","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.5, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","3","10","0.5","0.5","6.7985629025829e-05","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","3","10","0.5","0.5","0.000124534423262266","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","3","10","0.5","0.5","0.00029408128866752","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "2","CHECK_UNIQUE","4","4","2","10","0.5","0.5","0.000514309492031686","","AAB","103","112","202","206","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "2","MULTIPLE_MATCH","4","5","2","10","0.5","0.5","0.00107777710733537","0.9","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "3","UNIQUE","6","6","2","10","0.5","0.5","0.000249271988288299","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "3","MATCH","6","7","2","10","0.5","0.5","0.000763395464132916","0.95","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "4","CHECK_UNIQUE","8","8","7","10","0.5","0.5","0.000152004379408032","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "4","MULTIPLE_MATCH","8","10","7","10","0.5","0.5","0.000152004379408032","1","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "4","MATCH","8","11","7","10","0.5","0.5","0.000604696221745305","0.9","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "4","MULTIPLE_MATCH","8","12","7","10","0.5","0.5","0.000779548141286116","0.9","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "4","MULTIPLE_MATCH","8","9","7","10","0.5","0.5","0.0115960870898631","0.75","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "4","MULTIPLE_MATCH","8","5","7","10","0.5","0.5","0.423469387755102","0.5","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "4","MULTIPLE_MATCH","8","17","7","10","0.5","0.5","0.137648422160409","0.5","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "5","CHECK_UNIQUE","13","13","6","10","0.5","0.5","0.000141749751270222","","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","14","6","10","0.5","0.5","0.000229611167346806","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","16","6","10","0.5","0.5","0.000229611167346806","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "5","MATCH","13","15","6","10","0.5","0.5","0.000450037887999739","0.9","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "5","MULTIPLE_MATCH","13","19","6","10","0.5","0.5","0.12604541634438","0.55","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "5","MULTIPLE_MATCH","13","20","6","10","0.5","0.5","0.12604541634438","0.5","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"
  "6","CHECK_UNIQUE","17","17","5","10","0.5","0.5","0.000246877765928532","","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "6","MULTIPLE_MATCH","17","8","5","10","0.5","0.5","0.137648422160409","0.5","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "6","MULTIPLE_MATCH","17","9","5","10","0.5","0.5","0.263210641399417","0.5","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "6","MULTIPLE_MATCH","17","10","5","10","0.5","0.5","0.137648422160409","0.5","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "6","MULTIPLE_MATCH","17","12","5","10","0.5","0.5","0.137648422160409","0.5","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "7","CHECK_UNIQUE","18","18","3","10","0.5","0.5","0.000207469418444294","","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "7","MULTIPLE_MATCH","18","20","3","10","0.5","0.5","0.0011673378633062","0.9","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"
  "7","MULTIPLE_MATCH","18","19","3","10","0.5","0.5","0.0100037814637825","0.8","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.7, doPsib="missing", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","6","","","14","0.3","0.7","","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "","UNCLASSIFIED","7","","","14","0.3","0.7","","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "1","CHECK_UNIQUE","1","1","5","14","0.3","0.7","0.000168652248424458","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","5","14","0.3","0.7","0.000284045892083298","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MULTIPLE_MATCH","1","2","5","14","0.3","0.7","0.000619736491818105","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MULTIPLE_MATCH","1","9","5","14","0.3","0.7","","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MULTIPLE_MATCH","1","17","5","14","0.3","0.7","","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "2","CHECK_UNIQUE","4","4","12","14","0.3","0.7","0.000825594892622294","","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "2","MATCH","4","5","12","14","0.3","0.7","","0.85","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "2","MATCH","4","8","12","14","0.3","0.7","","0.45","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "2","MATCH","4","10","12","14","0.3","0.7","","0.45","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "2","MATCH","4","11","12","14","0.3","0.7","","0.45","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "2","MULTIPLE_MATCH","4","17","12","14","0.3","0.7","","0.45","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "2","MULTIPLE_MATCH","4","9","12","14","0.3","0.7","","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "2","MULTIPLE_MATCH","4","18","12","14","0.3","0.7","","0.4","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "2","MULTIPLE_MATCH","4","19","12","14","0.3","0.7","","0.4","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "2","MULTIPLE_MATCH","4","20","12","14","0.3","0.7","","0.4","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"
  "2","MULTIPLE_MATCH","4","2","12","14","0.3","0.7","","0.35","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "2","MATCH","4","12","12","14","0.3","0.7","","0.35","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "3","CHECK_UNIQUE","13","13","7","14","0.3","0.7","0.000367230843668232","","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "3","MATCH","13","14","7","14","0.3","0.7","","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "3","MATCH","13","16","7","14","0.3","0.7","","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "3","MATCH","13","15","7","14","0.3","0.7","","0.9","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "3","MULTIPLE_MATCH","13","19","7","14","0.3","0.7","","0.55","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "3","MULTIPLE_MATCH","13","20","7","14","0.3","0.7","","0.5","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"
  "3","MULTIPLE_MATCH","13","18","7","14","0.3","0.7","","0.45","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.7, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","6","","","14","0.3","0.7","","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "","UNCLASSIFIED","7","","","14","0.3","0.7","","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "1","CHECK_UNIQUE","1","1","5","14","0.3","0.7","0.000145968027876139","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","5","14","0.3","0.7","0.000284045892083298","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","5","14","0.3","0.7","0.000619736491818105","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MULTIPLE_MATCH","1","9","5","14","0.3","0.7","","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MULTIPLE_MATCH","1","17","5","14","0.3","0.7","","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "2","CHECK_UNIQUE","4","4","11","14","0.3","0.7","0.000825594892622294","","AAB","103","112","202","206","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "2","MATCH","4","5","11","14","0.3","0.7","","0.9","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "2","MATCH","4","8","11","14","0.3","0.7","","0.45","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "2","MATCH","4","10","11","14","0.3","0.7","","0.45","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "2","MULTIPLE_MATCH","4","17","11","14","0.3","0.7","","0.45","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "2","MULTIPLE_MATCH","4","9","11","14","0.3","0.7","","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "2","MATCH","4","11","11","14","0.3","0.7","","0.4","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "2","MULTIPLE_MATCH","4","18","11","14","0.3","0.7","","0.4","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "2","MULTIPLE_MATCH","4","19","11","14","0.3","0.7","","0.4","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "2","MULTIPLE_MATCH","4","20","11","14","0.3","0.7","","0.4","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"
  "2","MATCH","4","12","11","14","0.3","0.7","","0.35","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "3","CHECK_UNIQUE","13","13","7","14","0.3","0.7","0.000333089200606106","","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "3","MATCH","13","14","7","14","0.3","0.7","","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "3","MATCH","13","16","7","14","0.3","0.7","","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "3","MATCH","13","15","7","14","0.3","0.7","","0.9","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "3","MULTIPLE_MATCH","13","19","7","14","0.3","0.7","","0.55","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "3","MULTIPLE_MATCH","13","20","7","14","0.3","0.7","","0.5","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"
  "3","MULTIPLE_MATCH","13","18","7","14","0.3","0.7","","0.45","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.7, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","4","","","14","0.3","0.7","","","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "","UNCLASSIFIED","5","","","14","0.3","0.7","","","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "","UNCLASSIFIED","6","","","14","0.3","0.7","","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "","UNCLASSIFIED","7","","","14","0.3","0.7","","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "","UNCLASSIFIED","8","","","14","0.3","0.7","","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "","UNCLASSIFIED","10","","","14","0.3","0.7","","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "","UNCLASSIFIED","11","","","14","0.3","0.7","","","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "","UNCLASSIFIED","12","","","14","0.3","0.7","","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "","UNCLASSIFIED","13","","","14","0.3","0.7","","","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "","UNCLASSIFIED","14","","","14","0.3","0.7","","","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "","UNCLASSIFIED","15","","","14","0.3","0.7","","","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "","UNCLASSIFIED","16","","","14","0.3","0.7","","","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "","UNCLASSIFIED","18","","","14","0.3","0.7","","","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "","UNCLASSIFIED","19","","","14","0.3","0.7","","","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "","UNCLASSIFIED","20","","","14","0.3","0.7","","","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"
  "1","UNIQUE","1","1","5","14","0.3","0.7","0.0145519152283669","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","5","14","0.3","0.7","0.023283064365387","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","5","14","0.3","0.7","0.0372529029846191","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MATCH","1","9","5","14","0.3","0.7","","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MATCH","1","17","5","14","0.3","0.7","","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.7, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","4","","","14","0.3","0.7","","","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "","UNCLASSIFIED","5","","","14","0.3","0.7","","","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "","UNCLASSIFIED","6","","","14","0.3","0.7","","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "","UNCLASSIFIED","7","","","14","0.3","0.7","","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "","UNCLASSIFIED","8","","","14","0.3","0.7","","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "","UNCLASSIFIED","10","","","14","0.3","0.7","","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "","UNCLASSIFIED","11","","","14","0.3","0.7","","","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "","UNCLASSIFIED","12","","","14","0.3","0.7","","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "","UNCLASSIFIED","13","","","14","0.3","0.7","","","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "","UNCLASSIFIED","14","","","14","0.3","0.7","","","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "","UNCLASSIFIED","15","","","14","0.3","0.7","","","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "","UNCLASSIFIED","16","","","14","0.3","0.7","","","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "","UNCLASSIFIED","18","","","14","0.3","0.7","","","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "","UNCLASSIFIED","19","","","14","0.3","0.7","","","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "","UNCLASSIFIED","20","","","14","0.3","0.7","","","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"
  "1","UNIQUE","1","1","5","14","0.3","0.7","0.0145519152283669","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","5","14","0.3","0.7","0.023283064365387","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","5","14","0.3","0.7","0.0372529029846191","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MATCH","1","9","5","14","0.3","0.7","","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MATCH","1","17","5","14","0.3","0.7","","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.7, doPsib="all", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","6","","","14","0.3","0.7","","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "","UNCLASSIFIED","7","","","14","0.3","0.7","","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "1","CHECK_UNIQUE","1","1","5","14","0.3","0.7","0.000168652248424458","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","5","14","0.3","0.7","0.000284045892083298","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MULTIPLE_MATCH","1","2","5","14","0.3","0.7","0.000619736491818105","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MULTIPLE_MATCH","1","9","5","14","0.3","0.7","0.59375","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MULTIPLE_MATCH","1","17","5","14","0.3","0.7","0.239149305555556","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "2","CHECK_UNIQUE","4","4","12","14","0.3","0.7","0.000825594892622294","","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "2","MATCH","4","5","12","14","0.3","0.7","0.0031081219486957","0.85","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "2","MATCH","4","8","12","14","0.3","0.7","0.458333333333333","0.45","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "2","MATCH","4","10","12","14","0.3","0.7","0.458333333333333","0.45","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "2","MATCH","4","11","12","14","0.3","0.7","0.458333333333333","0.45","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "2","MULTIPLE_MATCH","4","17","12","14","0.3","0.7","0.541666666666667","0.45","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "2","MULTIPLE_MATCH","4","9","12","14","0.3","0.7","1","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "2","MULTIPLE_MATCH","4","18","12","14","0.3","0.7","1","0.4","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "2","MULTIPLE_MATCH","4","19","12","14","0.3","0.7","1","0.4","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "2","MULTIPLE_MATCH","4","20","12","14","0.3","0.7","1","0.4","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"
  "2","MULTIPLE_MATCH","4","2","12","14","0.3","0.7","1","0.35","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "2","MATCH","4","12","12","14","0.3","0.7","1","0.35","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "3","CHECK_UNIQUE","13","13","7","14","0.3","0.7","0.000367230843668232","","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "3","MATCH","13","14","7","14","0.3","0.7","0.000479648448872793","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "3","MATCH","13","16","7","14","0.3","0.7","0.000479648448872793","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "3","MATCH","13","15","7","14","0.3","0.7","0.000852708353551631","0.9","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "3","MULTIPLE_MATCH","13","19","7","14","0.3","0.7","0.160834418402778","0.55","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "3","MULTIPLE_MATCH","13","20","7","14","0.3","0.7","0.160834418402778","0.5","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"
  "3","MULTIPLE_MATCH","13","18","7","14","0.3","0.7","0.350911458333333","0.45","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.7, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","6","","","14","0.3","0.7","","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "","UNCLASSIFIED","7","","","14","0.3","0.7","","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "1","CHECK_UNIQUE","1","1","5","14","0.3","0.7","0.000145968027876139","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","5","14","0.3","0.7","0.000284045892083298","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","5","14","0.3","0.7","0.000619736491818105","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MULTIPLE_MATCH","1","9","5","14","0.3","0.7","0.513888888888889","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MULTIPLE_MATCH","1","17","5","14","0.3","0.7","0.206983024691358","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "2","CHECK_UNIQUE","4","4","11","14","0.3","0.7","0.000825594892622294","","AAB","103","112","202","206","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "2","MATCH","4","5","11","14","0.3","0.7","0.0015972293347464","0.9","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "2","MATCH","4","8","11","14","0.3","0.7","0.458333333333333","0.45","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "2","MATCH","4","10","11","14","0.3","0.7","0.458333333333333","0.45","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "2","MULTIPLE_MATCH","4","17","11","14","0.3","0.7","0.541666666666667","0.45","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "2","MULTIPLE_MATCH","4","9","11","14","0.3","0.7","1","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "2","MATCH","4","11","11","14","0.3","0.7","0.458333333333333","0.4","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "2","MULTIPLE_MATCH","4","18","11","14","0.3","0.7","1","0.4","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "2","MULTIPLE_MATCH","4","19","11","14","0.3","0.7","1","0.4","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "2","MULTIPLE_MATCH","4","20","11","14","0.3","0.7","1","0.4","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"
  "2","MATCH","4","12","11","14","0.3","0.7","1","0.35","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "3","CHECK_UNIQUE","13","13","7","14","0.3","0.7","0.000333089200606106","","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "3","MATCH","13","14","7","14","0.3","0.7","0.000479648448872793","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "3","MATCH","13","16","7","14","0.3","0.7","0.000479648448872793","0.95","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "3","MATCH","13","15","7","14","0.3","0.7","0.000852708353551631","0.9","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "3","MULTIPLE_MATCH","13","19","7","14","0.3","0.7","0.145881558641975","0.55","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "3","MULTIPLE_MATCH","13","20","7","14","0.3","0.7","0.145881558641975","0.5","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"
  "3","MULTIPLE_MATCH","13","18","7","14","0.3","0.7","0.318287037037037","0.45","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.7, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","4","","","14","0.3","0.7","","","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "","UNCLASSIFIED","5","","","14","0.3","0.7","","","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "","UNCLASSIFIED","6","","","14","0.3","0.7","","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "","UNCLASSIFIED","7","","","14","0.3","0.7","","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "","UNCLASSIFIED","8","","","14","0.3","0.7","","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "","UNCLASSIFIED","10","","","14","0.3","0.7","","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "","UNCLASSIFIED","11","","","14","0.3","0.7","","","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "","UNCLASSIFIED","12","","","14","0.3","0.7","","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "","UNCLASSIFIED","13","","","14","0.3","0.7","","","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "","UNCLASSIFIED","14","","","14","0.3","0.7","","","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "","UNCLASSIFIED","15","","","14","0.3","0.7","","","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "","UNCLASSIFIED","16","","","14","0.3","0.7","","","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "","UNCLASSIFIED","18","","","14","0.3","0.7","","","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "","UNCLASSIFIED","19","","","14","0.3","0.7","","","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "","UNCLASSIFIED","20","","","14","0.3","0.7","","","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"
  "1","UNIQUE","1","1","5","14","0.3","0.7","0.0145519152283669","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","5","14","0.3","0.7","0.023283064365387","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","5","14","0.3","0.7","0.0372529029846191","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MATCH","1","9","5","14","0.3","0.7","0.625","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MATCH","1","17","5","14","0.3","0.7","0.390625","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.7, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","4","","","14","0.3","0.7","","","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "","UNCLASSIFIED","5","","","14","0.3","0.7","","","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "","UNCLASSIFIED","6","","","14","0.3","0.7","","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "","UNCLASSIFIED","7","","","14","0.3","0.7","","","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "","UNCLASSIFIED","8","","","14","0.3","0.7","","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "","UNCLASSIFIED","10","","","14","0.3","0.7","","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "","UNCLASSIFIED","11","","","14","0.3","0.7","","","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "","UNCLASSIFIED","12","","","14","0.3","0.7","","","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "","UNCLASSIFIED","13","","","14","0.3","0.7","","","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "","UNCLASSIFIED","14","","","14","0.3","0.7","","","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "","UNCLASSIFIED","15","","","14","0.3","0.7","","","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "","UNCLASSIFIED","16","","","14","0.3","0.7","","","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "","UNCLASSIFIED","18","","","14","0.3","0.7","","","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "","UNCLASSIFIED","19","","","14","0.3","0.7","","","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "","UNCLASSIFIED","20","","","14","0.3","0.7","","","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"
  "1","UNIQUE","1","1","5","14","0.3","0.7","0.0145519152283669","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","5","14","0.3","0.7","0.023283064365387","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","5","14","0.3","0.7","0.0372529029846191","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MATCH","1","9","5","14","0.3","0.7","0.625","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MATCH","1","17","5","14","0.3","0.7","0.390625","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.9, doPsib="missing", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","18","0.1","0.9","0.0145519152283669","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","20","18","0.1","0.9","0.023283064365387","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","20","18","0.1","0.9","0.0372529029846191","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MATCH","1","9","20","18","0.1","0.9","","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MATCH","1","17","20","18","0.1","0.9","","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "1","MATCH","1","6","20","18","0.1","0.9","","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "1","MATCH","1","7","20","18","0.1","0.9","","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "1","MATCH","1","8","20","18","0.1","0.9","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","10","20","18","0.1","0.9","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","12","20","18","0.1","0.9","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "1","MATCH","1","19","20","18","0.1","0.9","","0.3","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","4","20","18","0.1","0.9","","0.25","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","5","20","18","0.1","0.9","","0.25","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","15","20","18","0.1","0.9","","0.25","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "1","MATCH","1","11","20","18","0.1","0.9","","0.2","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "1","MATCH","1","14","20","18","0.1","0.9","","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","16","20","18","0.1","0.9","","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","18","20","18","0.1","0.9","","0.2","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","13","20","18","0.1","0.9","","0.15","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","20","20","18","0.1","0.9","","0.15","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.9, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","18","0.1","0.9","0.0145519152283669","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","20","18","0.1","0.9","0.023283064365387","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","20","18","0.1","0.9","0.0372529029846191","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MATCH","1","9","20","18","0.1","0.9","","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MATCH","1","17","20","18","0.1","0.9","","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "1","MATCH","1","6","20","18","0.1","0.9","","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "1","MATCH","1","7","20","18","0.1","0.9","","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "1","MATCH","1","8","20","18","0.1","0.9","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","10","20","18","0.1","0.9","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","12","20","18","0.1","0.9","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "1","MATCH","1","19","20","18","0.1","0.9","","0.3","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","4","20","18","0.1","0.9","","0.25","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","5","20","18","0.1","0.9","","0.25","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","15","20","18","0.1","0.9","","0.25","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "1","MATCH","1","11","20","18","0.1","0.9","","0.2","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "1","MATCH","1","14","20","18","0.1","0.9","","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","16","20","18","0.1","0.9","","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","18","20","18","0.1","0.9","","0.2","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","13","20","18","0.1","0.9","","0.15","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","20","20","18","0.1","0.9","","0.15","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.9, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","18","0.1","0.9","0.0145519152283669","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","20","18","0.1","0.9","0.023283064365387","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","20","18","0.1","0.9","0.0372529029846191","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MATCH","1","9","20","18","0.1","0.9","","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MATCH","1","17","20","18","0.1","0.9","","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "1","MATCH","1","6","20","18","0.1","0.9","","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "1","MATCH","1","7","20","18","0.1","0.9","","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "1","MATCH","1","8","20","18","0.1","0.9","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","10","20","18","0.1","0.9","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","12","20","18","0.1","0.9","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "1","MATCH","1","19","20","18","0.1","0.9","","0.3","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","4","20","18","0.1","0.9","","0.25","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","5","20","18","0.1","0.9","","0.25","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","15","20","18","0.1","0.9","","0.25","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "1","MATCH","1","11","20","18","0.1","0.9","","0.2","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "1","MATCH","1","14","20","18","0.1","0.9","","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","16","20","18","0.1","0.9","","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","18","20","18","0.1","0.9","","0.2","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","13","20","18","0.1","0.9","","0.15","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","20","20","18","0.1","0.9","","0.15","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.9, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","18","0.1","0.9","0.0145519152283669","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","20","18","0.1","0.9","0.023283064365387","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","20","18","0.1","0.9","0.0372529029846191","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MATCH","1","9","20","18","0.1","0.9","","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MATCH","1","17","20","18","0.1","0.9","","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "1","MATCH","1","6","20","18","0.1","0.9","","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "1","MATCH","1","7","20","18","0.1","0.9","","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "1","MATCH","1","8","20","18","0.1","0.9","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","10","20","18","0.1","0.9","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","12","20","18","0.1","0.9","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "1","MATCH","1","19","20","18","0.1","0.9","","0.3","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","4","20","18","0.1","0.9","","0.25","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","5","20","18","0.1","0.9","","0.25","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","15","20","18","0.1","0.9","","0.25","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "1","MATCH","1","11","20","18","0.1","0.9","","0.2","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "1","MATCH","1","14","20","18","0.1","0.9","","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","16","20","18","0.1","0.9","","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","18","20","18","0.1","0.9","","0.2","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","13","20","18","0.1","0.9","","0.15","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","20","20","18","0.1","0.9","","0.15","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.9, doPsib="all", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","18","0.1","0.9","0.0145519152283669","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","20","18","0.1","0.9","0.023283064365387","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","20","18","0.1","0.9","0.0372529029846191","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MATCH","1","9","20","18","0.1","0.9","0.625","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MATCH","1","17","20","18","0.1","0.9","0.390625","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "1","MATCH","1","6","20","18","0.1","0.9","0.625","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "1","MATCH","1","7","20","18","0.1","0.9","0.625","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "1","MATCH","1","8","20","18","0.1","0.9","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","10","20","18","0.1","0.9","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","12","20","18","0.1","0.9","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "1","MATCH","1","19","20","18","0.1","0.9","1","0.3","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","4","20","18","0.1","0.9","1","0.25","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","5","20","18","0.1","0.9","1","0.25","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","15","20","18","0.1","0.9","0.625","0.25","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "1","MATCH","1","11","20","18","0.1","0.9","1","0.2","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "1","MATCH","1","14","20","18","0.1","0.9","0.625","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","16","20","18","0.1","0.9","0.625","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","18","20","18","0.1","0.9","1","0.2","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","13","20","18","0.1","0.9","1","0.15","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","20","20","18","0.1","0.9","1","0.15","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.9, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","18","0.1","0.9","0.0145519152283669","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","20","18","0.1","0.9","0.023283064365387","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","20","18","0.1","0.9","0.0372529029846191","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MATCH","1","9","20","18","0.1","0.9","0.625","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MATCH","1","17","20","18","0.1","0.9","0.390625","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "1","MATCH","1","6","20","18","0.1","0.9","0.625","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "1","MATCH","1","7","20","18","0.1","0.9","0.625","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "1","MATCH","1","8","20","18","0.1","0.9","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","10","20","18","0.1","0.9","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","12","20","18","0.1","0.9","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "1","MATCH","1","19","20","18","0.1","0.9","1","0.3","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","4","20","18","0.1","0.9","1","0.25","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","5","20","18","0.1","0.9","1","0.25","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","15","20","18","0.1","0.9","0.625","0.25","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "1","MATCH","1","11","20","18","0.1","0.9","1","0.2","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "1","MATCH","1","14","20","18","0.1","0.9","0.625","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","16","20","18","0.1","0.9","0.625","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","18","20","18","0.1","0.9","1","0.2","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","13","20","18","0.1","0.9","1","0.15","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","20","20","18","0.1","0.9","1","0.15","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.9, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","18","0.1","0.9","0.0145519152283669","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","20","18","0.1","0.9","0.023283064365387","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","20","18","0.1","0.9","0.0372529029846191","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MATCH","1","9","20","18","0.1","0.9","0.625","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MATCH","1","17","20","18","0.1","0.9","0.390625","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "1","MATCH","1","6","20","18","0.1","0.9","0.625","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "1","MATCH","1","7","20","18","0.1","0.9","0.625","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "1","MATCH","1","8","20","18","0.1","0.9","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","10","20","18","0.1","0.9","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","12","20","18","0.1","0.9","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "1","MATCH","1","19","20","18","0.1","0.9","1","0.3","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","4","20","18","0.1","0.9","1","0.25","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","5","20","18","0.1","0.9","1","0.25","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","15","20","18","0.1","0.9","0.625","0.25","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "1","MATCH","1","11","20","18","0.1","0.9","1","0.2","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "1","MATCH","1","14","20","18","0.1","0.9","0.625","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","16","20","18","0.1","0.9","0.625","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","18","20","18","0.1","0.9","1","0.2","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","13","20","18","0.1","0.9","1","0.15","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","20","20","18","0.1","0.9","1","0.15","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.9, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","18","0.1","0.9","0.0145519152283669","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","20","18","0.1","0.9","0.023283064365387","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","20","18","0.1","0.9","0.0372529029846191","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MATCH","1","9","20","18","0.1","0.9","0.625","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MATCH","1","17","20","18","0.1","0.9","0.390625","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "1","MATCH","1","6","20","18","0.1","0.9","0.625","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "1","MATCH","1","7","20","18","0.1","0.9","0.625","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "1","MATCH","1","8","20","18","0.1","0.9","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","10","20","18","0.1","0.9","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","12","20","18","0.1","0.9","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "1","MATCH","1","19","20","18","0.1","0.9","1","0.3","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","4","20","18","0.1","0.9","1","0.25","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","5","20","18","0.1","0.9","1","0.25","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","15","20","18","0.1","0.9","0.625","0.25","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "1","MATCH","1","11","20","18","0.1","0.9","1","0.2","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "1","MATCH","1","14","20","18","0.1","0.9","0.625","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","16","20","18","0.1","0.9","0.625","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","18","20","18","0.1","0.9","1","0.2","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","13","20","18","0.1","0.9","1","0.15","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","20","20","18","0.1","0.9","1","0.15","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.95, doPsib="missing", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","19","0.05","0.95","0.0145519152283669","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","20","19","0.05","0.95","0.023283064365387","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","20","19","0.05","0.95","0.0372529029846191","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MATCH","1","9","20","19","0.05","0.95","","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MATCH","1","17","20","19","0.05","0.95","","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "1","MATCH","1","6","20","19","0.05","0.95","","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "1","MATCH","1","7","20","19","0.05","0.95","","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "1","MATCH","1","8","20","19","0.05","0.95","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","10","20","19","0.05","0.95","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","12","20","19","0.05","0.95","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "1","MATCH","1","19","20","19","0.05","0.95","","0.3","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","4","20","19","0.05","0.95","","0.25","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","5","20","19","0.05","0.95","","0.25","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","15","20","19","0.05","0.95","","0.25","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "1","MATCH","1","11","20","19","0.05","0.95","","0.2","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "1","MATCH","1","14","20","19","0.05","0.95","","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","16","20","19","0.05","0.95","","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","18","20","19","0.05","0.95","","0.2","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","13","20","19","0.05","0.95","","0.15","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","20","20","19","0.05","0.95","","0.15","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.95, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","19","0.05","0.95","0.0145519152283669","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","20","19","0.05","0.95","0.023283064365387","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","20","19","0.05","0.95","0.0372529029846191","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MATCH","1","9","20","19","0.05","0.95","","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MATCH","1","17","20","19","0.05","0.95","","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "1","MATCH","1","6","20","19","0.05","0.95","","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "1","MATCH","1","7","20","19","0.05","0.95","","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "1","MATCH","1","8","20","19","0.05","0.95","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","10","20","19","0.05","0.95","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","12","20","19","0.05","0.95","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "1","MATCH","1","19","20","19","0.05","0.95","","0.3","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","4","20","19","0.05","0.95","","0.25","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","5","20","19","0.05","0.95","","0.25","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","15","20","19","0.05","0.95","","0.25","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "1","MATCH","1","11","20","19","0.05","0.95","","0.2","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "1","MATCH","1","14","20","19","0.05","0.95","","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","16","20","19","0.05","0.95","","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","18","20","19","0.05","0.95","","0.2","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","13","20","19","0.05","0.95","","0.15","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","20","20","19","0.05","0.95","","0.15","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.95, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","19","0.05","0.95","0.0145519152283669","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","20","19","0.05","0.95","0.023283064365387","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","20","19","0.05","0.95","0.0372529029846191","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MATCH","1","9","20","19","0.05","0.95","","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MATCH","1","17","20","19","0.05","0.95","","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "1","MATCH","1","6","20","19","0.05","0.95","","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "1","MATCH","1","7","20","19","0.05","0.95","","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "1","MATCH","1","8","20","19","0.05","0.95","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","10","20","19","0.05","0.95","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","12","20","19","0.05","0.95","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "1","MATCH","1","19","20","19","0.05","0.95","","0.3","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","4","20","19","0.05","0.95","","0.25","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","5","20","19","0.05","0.95","","0.25","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","15","20","19","0.05","0.95","","0.25","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "1","MATCH","1","11","20","19","0.05","0.95","","0.2","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "1","MATCH","1","14","20","19","0.05","0.95","","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","16","20","19","0.05","0.95","","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","18","20","19","0.05","0.95","","0.2","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","13","20","19","0.05","0.95","","0.15","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","20","20","19","0.05","0.95","","0.15","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.95, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","19","0.05","0.95","0.0145519152283669","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","20","19","0.05","0.95","0.023283064365387","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","20","19","0.05","0.95","0.0372529029846191","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MATCH","1","9","20","19","0.05","0.95","","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MATCH","1","17","20","19","0.05","0.95","","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "1","MATCH","1","6","20","19","0.05","0.95","","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "1","MATCH","1","7","20","19","0.05","0.95","","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "1","MATCH","1","8","20","19","0.05","0.95","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","10","20","19","0.05","0.95","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","12","20","19","0.05","0.95","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "1","MATCH","1","19","20","19","0.05","0.95","","0.3","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","4","20","19","0.05","0.95","","0.25","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","5","20","19","0.05","0.95","","0.25","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","15","20","19","0.05","0.95","","0.25","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "1","MATCH","1","11","20","19","0.05","0.95","","0.2","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "1","MATCH","1","14","20","19","0.05","0.95","","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","16","20","19","0.05","0.95","","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","18","20","19","0.05","0.95","","0.2","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","13","20","19","0.05","0.95","","0.15","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","20","20","19","0.05","0.95","","0.15","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.95, doPsib="all", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","19","0.05","0.95","0.0145519152283669","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","20","19","0.05","0.95","0.023283064365387","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","20","19","0.05","0.95","0.0372529029846191","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MATCH","1","9","20","19","0.05","0.95","0.625","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MATCH","1","17","20","19","0.05","0.95","0.390625","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "1","MATCH","1","6","20","19","0.05","0.95","0.625","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "1","MATCH","1","7","20","19","0.05","0.95","0.625","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "1","MATCH","1","8","20","19","0.05","0.95","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","10","20","19","0.05","0.95","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","12","20","19","0.05","0.95","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "1","MATCH","1","19","20","19","0.05","0.95","1","0.3","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","4","20","19","0.05","0.95","1","0.25","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","5","20","19","0.05","0.95","1","0.25","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","15","20","19","0.05","0.95","0.625","0.25","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "1","MATCH","1","11","20","19","0.05","0.95","1","0.2","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "1","MATCH","1","14","20","19","0.05","0.95","0.625","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","16","20","19","0.05","0.95","0.625","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","18","20","19","0.05","0.95","1","0.2","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","13","20","19","0.05","0.95","1","0.15","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","20","20","19","0.05","0.95","1","0.15","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.95, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","19","0.05","0.95","0.0145519152283669","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","20","19","0.05","0.95","0.023283064365387","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","20","19","0.05","0.95","0.0372529029846191","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MATCH","1","9","20","19","0.05","0.95","0.625","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MATCH","1","17","20","19","0.05","0.95","0.390625","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "1","MATCH","1","6","20","19","0.05","0.95","0.625","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "1","MATCH","1","7","20","19","0.05","0.95","0.625","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "1","MATCH","1","8","20","19","0.05","0.95","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","10","20","19","0.05","0.95","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","12","20","19","0.05","0.95","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "1","MATCH","1","19","20","19","0.05","0.95","1","0.3","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","4","20","19","0.05","0.95","1","0.25","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","5","20","19","0.05","0.95","1","0.25","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","15","20","19","0.05","0.95","0.625","0.25","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "1","MATCH","1","11","20","19","0.05","0.95","1","0.2","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "1","MATCH","1","14","20","19","0.05","0.95","0.625","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","16","20","19","0.05","0.95","0.625","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","18","20","19","0.05","0.95","1","0.2","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","13","20","19","0.05","0.95","1","0.15","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","20","20","19","0.05","0.95","1","0.15","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.95, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","19","0.05","0.95","0.0145519152283669","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","20","19","0.05","0.95","0.023283064365387","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","20","19","0.05","0.95","0.0372529029846191","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MATCH","1","9","20","19","0.05","0.95","0.625","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MATCH","1","17","20","19","0.05","0.95","0.390625","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "1","MATCH","1","6","20","19","0.05","0.95","0.625","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "1","MATCH","1","7","20","19","0.05","0.95","0.625","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "1","MATCH","1","8","20","19","0.05","0.95","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","10","20","19","0.05","0.95","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","12","20","19","0.05","0.95","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "1","MATCH","1","19","20","19","0.05","0.95","1","0.3","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","4","20","19","0.05","0.95","1","0.25","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","5","20","19","0.05","0.95","1","0.25","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","15","20","19","0.05","0.95","0.625","0.25","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "1","MATCH","1","11","20","19","0.05","0.95","1","0.2","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "1","MATCH","1","14","20","19","0.05","0.95","0.625","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","16","20","19","0.05","0.95","0.625","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","18","20","19","0.05","0.95","1","0.2","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","13","20","19","0.05","0.95","1","0.15","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","20","20","19","0.05","0.95","1","0.15","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.95, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","19","0.05","0.95","0.0145519152283669","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","20","19","0.05","0.95","0.023283064365387","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","20","19","0.05","0.95","0.0372529029846191","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MATCH","1","9","20","19","0.05","0.95","0.625","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MATCH","1","17","20","19","0.05","0.95","0.390625","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "1","MATCH","1","6","20","19","0.05","0.95","0.625","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "1","MATCH","1","7","20","19","0.05","0.95","0.625","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "1","MATCH","1","8","20","19","0.05","0.95","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","10","20","19","0.05","0.95","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","12","20","19","0.05","0.95","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "1","MATCH","1","19","20","19","0.05","0.95","1","0.3","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","4","20","19","0.05","0.95","1","0.25","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","5","20","19","0.05","0.95","1","0.25","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","15","20","19","0.05","0.95","0.625","0.25","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "1","MATCH","1","11","20","19","0.05","0.95","1","0.2","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "1","MATCH","1","14","20","19","0.05","0.95","0.625","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","16","20","19","0.05","0.95","0.625","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","18","20","19","0.05","0.95","1","0.2","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","13","20","19","0.05","0.95","1","0.15","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","20","20","19","0.05","0.95","1","0.15","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.99, doPsib="missing", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","19.8","0.01","0.99","0.0145519152283669","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","20","19.8","0.01","0.99","0.023283064365387","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","20","19.8","0.01","0.99","0.0372529029846191","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MATCH","1","9","20","19.8","0.01","0.99","","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MATCH","1","17","20","19.8","0.01","0.99","","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "1","MATCH","1","6","20","19.8","0.01","0.99","","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "1","MATCH","1","7","20","19.8","0.01","0.99","","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "1","MATCH","1","8","20","19.8","0.01","0.99","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","10","20","19.8","0.01","0.99","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","12","20","19.8","0.01","0.99","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "1","MATCH","1","19","20","19.8","0.01","0.99","","0.3","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","4","20","19.8","0.01","0.99","","0.25","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","5","20","19.8","0.01","0.99","","0.25","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","15","20","19.8","0.01","0.99","","0.25","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "1","MATCH","1","11","20","19.8","0.01","0.99","","0.2","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "1","MATCH","1","14","20","19.8","0.01","0.99","","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","16","20","19.8","0.01","0.99","","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","18","20","19.8","0.01","0.99","","0.2","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","13","20","19.8","0.01","0.99","","0.15","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","20","20","19.8","0.01","0.99","","0.15","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.99, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","19.8","0.01","0.99","0.0145519152283669","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","20","19.8","0.01","0.99","0.023283064365387","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","20","19.8","0.01","0.99","0.0372529029846191","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MATCH","1","9","20","19.8","0.01","0.99","","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MATCH","1","17","20","19.8","0.01","0.99","","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "1","MATCH","1","6","20","19.8","0.01","0.99","","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "1","MATCH","1","7","20","19.8","0.01","0.99","","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "1","MATCH","1","8","20","19.8","0.01","0.99","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","10","20","19.8","0.01","0.99","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","12","20","19.8","0.01","0.99","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "1","MATCH","1","19","20","19.8","0.01","0.99","","0.3","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","4","20","19.8","0.01","0.99","","0.25","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","5","20","19.8","0.01","0.99","","0.25","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","15","20","19.8","0.01","0.99","","0.25","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "1","MATCH","1","11","20","19.8","0.01","0.99","","0.2","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "1","MATCH","1","14","20","19.8","0.01","0.99","","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","16","20","19.8","0.01","0.99","","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","18","20","19.8","0.01","0.99","","0.2","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","13","20","19.8","0.01","0.99","","0.15","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","20","20","19.8","0.01","0.99","","0.15","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.99, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","19.8","0.01","0.99","0.0145519152283669","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","20","19.8","0.01","0.99","0.023283064365387","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","20","19.8","0.01","0.99","0.0372529029846191","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MATCH","1","9","20","19.8","0.01","0.99","","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MATCH","1","17","20","19.8","0.01","0.99","","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "1","MATCH","1","6","20","19.8","0.01","0.99","","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "1","MATCH","1","7","20","19.8","0.01","0.99","","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "1","MATCH","1","8","20","19.8","0.01","0.99","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","10","20","19.8","0.01","0.99","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","12","20","19.8","0.01","0.99","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "1","MATCH","1","19","20","19.8","0.01","0.99","","0.3","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","4","20","19.8","0.01","0.99","","0.25","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","5","20","19.8","0.01","0.99","","0.25","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","15","20","19.8","0.01","0.99","","0.25","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "1","MATCH","1","11","20","19.8","0.01","0.99","","0.2","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "1","MATCH","1","14","20","19.8","0.01","0.99","","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","16","20","19.8","0.01","0.99","","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","18","20","19.8","0.01","0.99","","0.2","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","13","20","19.8","0.01","0.99","","0.15","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","20","20","19.8","0.01","0.99","","0.15","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.99, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","19.8","0.01","0.99","0.0145519152283669","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","20","19.8","0.01","0.99","0.023283064365387","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","20","19.8","0.01","0.99","0.0372529029846191","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MATCH","1","9","20","19.8","0.01","0.99","","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MATCH","1","17","20","19.8","0.01","0.99","","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "1","MATCH","1","6","20","19.8","0.01","0.99","","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "1","MATCH","1","7","20","19.8","0.01","0.99","","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "1","MATCH","1","8","20","19.8","0.01","0.99","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","10","20","19.8","0.01","0.99","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","12","20","19.8","0.01","0.99","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "1","MATCH","1","19","20","19.8","0.01","0.99","","0.3","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","4","20","19.8","0.01","0.99","","0.25","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","5","20","19.8","0.01","0.99","","0.25","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","15","20","19.8","0.01","0.99","","0.25","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "1","MATCH","1","11","20","19.8","0.01","0.99","","0.2","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "1","MATCH","1","14","20","19.8","0.01","0.99","","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","16","20","19.8","0.01","0.99","","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","18","20","19.8","0.01","0.99","","0.2","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","13","20","19.8","0.01","0.99","","0.15","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","20","20","19.8","0.01","0.99","","0.15","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.99, doPsib="all", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","19.8","0.01","0.99","0.0145519152283669","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","20","19.8","0.01","0.99","0.023283064365387","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","20","19.8","0.01","0.99","0.0372529029846191","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MATCH","1","9","20","19.8","0.01","0.99","0.625","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MATCH","1","17","20","19.8","0.01","0.99","0.390625","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "1","MATCH","1","6","20","19.8","0.01","0.99","0.625","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "1","MATCH","1","7","20","19.8","0.01","0.99","0.625","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "1","MATCH","1","8","20","19.8","0.01","0.99","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","10","20","19.8","0.01","0.99","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","12","20","19.8","0.01","0.99","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "1","MATCH","1","19","20","19.8","0.01","0.99","1","0.3","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","4","20","19.8","0.01","0.99","1","0.25","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","5","20","19.8","0.01","0.99","1","0.25","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","15","20","19.8","0.01","0.99","0.625","0.25","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "1","MATCH","1","11","20","19.8","0.01","0.99","1","0.2","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "1","MATCH","1","14","20","19.8","0.01","0.99","0.625","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","16","20","19.8","0.01","0.99","0.625","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","18","20","19.8","0.01","0.99","1","0.2","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","13","20","19.8","0.01","0.99","1","0.15","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","20","20","19.8","0.01","0.99","1","0.15","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.99, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","19.8","0.01","0.99","0.0145519152283669","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","20","19.8","0.01","0.99","0.023283064365387","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","20","19.8","0.01","0.99","0.0372529029846191","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MATCH","1","9","20","19.8","0.01","0.99","0.625","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MATCH","1","17","20","19.8","0.01","0.99","0.390625","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "1","MATCH","1","6","20","19.8","0.01","0.99","0.625","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "1","MATCH","1","7","20","19.8","0.01","0.99","0.625","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "1","MATCH","1","8","20","19.8","0.01","0.99","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","10","20","19.8","0.01","0.99","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","12","20","19.8","0.01","0.99","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "1","MATCH","1","19","20","19.8","0.01","0.99","1","0.3","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","4","20","19.8","0.01","0.99","1","0.25","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","5","20","19.8","0.01","0.99","1","0.25","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","15","20","19.8","0.01","0.99","0.625","0.25","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "1","MATCH","1","11","20","19.8","0.01","0.99","1","0.2","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "1","MATCH","1","14","20","19.8","0.01","0.99","0.625","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","16","20","19.8","0.01","0.99","0.625","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","18","20","19.8","0.01","0.99","1","0.2","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","13","20","19.8","0.01","0.99","1","0.15","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","20","20","19.8","0.01","0.99","1","0.15","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.99, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","19.8","0.01","0.99","0.0145519152283669","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","20","19.8","0.01","0.99","0.023283064365387","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","20","19.8","0.01","0.99","0.0372529029846191","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MATCH","1","9","20","19.8","0.01","0.99","0.625","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MATCH","1","17","20","19.8","0.01","0.99","0.390625","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "1","MATCH","1","6","20","19.8","0.01","0.99","0.625","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "1","MATCH","1","7","20","19.8","0.01","0.99","0.625","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "1","MATCH","1","8","20","19.8","0.01","0.99","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","10","20","19.8","0.01","0.99","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","12","20","19.8","0.01","0.99","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "1","MATCH","1","19","20","19.8","0.01","0.99","1","0.3","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","4","20","19.8","0.01","0.99","1","0.25","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","5","20","19.8","0.01","0.99","1","0.25","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","15","20","19.8","0.01","0.99","0.625","0.25","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "1","MATCH","1","11","20","19.8","0.01","0.99","1","0.2","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "1","MATCH","1","14","20","19.8","0.01","0.99","0.625","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","16","20","19.8","0.01","0.99","0.625","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","18","20","19.8","0.01","0.99","1","0.2","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","13","20","19.8","0.01","0.99","1","0.15","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","20","20","19.8","0.01","0.99","1","0.15","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=0.99, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","19.8","0.01","0.99","0.0145519152283669","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","20","19.8","0.01","0.99","0.023283064365387","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","20","19.8","0.01","0.99","0.0372529029846191","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MATCH","1","9","20","19.8","0.01","0.99","0.625","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MATCH","1","17","20","19.8","0.01","0.99","0.390625","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "1","MATCH","1","6","20","19.8","0.01","0.99","0.625","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "1","MATCH","1","7","20","19.8","0.01","0.99","0.625","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "1","MATCH","1","8","20","19.8","0.01","0.99","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","10","20","19.8","0.01","0.99","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","12","20","19.8","0.01","0.99","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "1","MATCH","1","19","20","19.8","0.01","0.99","1","0.3","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","4","20","19.8","0.01","0.99","1","0.25","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","5","20","19.8","0.01","0.99","1","0.25","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","15","20","19.8","0.01","0.99","0.625","0.25","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "1","MATCH","1","11","20","19.8","0.01","0.99","1","0.2","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "1","MATCH","1","14","20","19.8","0.01","0.99","0.625","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","16","20","19.8","0.01","0.99","0.625","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","18","20","19.8","0.01","0.99","1","0.2","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","13","20","19.8","0.01","0.99","1","0.15","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","20","20","19.8","0.01","0.99","1","0.15","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=1, doPsib="missing", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","20","0","1","0.0145519152283669","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","20","20","0","1","0.023283064365387","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","20","20","0","1","0.0372529029846191","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MATCH","1","9","20","20","0","1","","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MATCH","1","17","20","20","0","1","","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "1","MATCH","1","6","20","20","0","1","","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "1","MATCH","1","7","20","20","0","1","","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "1","MATCH","1","8","20","20","0","1","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","10","20","20","0","1","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","12","20","20","0","1","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "1","MATCH","1","19","20","20","0","1","","0.3","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","4","20","20","0","1","","0.25","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","5","20","20","0","1","","0.25","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","15","20","20","0","1","","0.25","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "1","MATCH","1","11","20","20","0","1","","0.2","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "1","MATCH","1","14","20","20","0","1","","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","16","20","20","0","1","","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","18","20","20","0","1","","0.2","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","13","20","20","0","1","","0.15","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","20","20","20","0","1","","0.15","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=1, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","20","0","1","0.0145519152283669","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","20","20","0","1","0.023283064365387","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","20","20","0","1","0.0372529029846191","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MATCH","1","9","20","20","0","1","","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MATCH","1","17","20","20","0","1","","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "1","MATCH","1","6","20","20","0","1","","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "1","MATCH","1","7","20","20","0","1","","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "1","MATCH","1","8","20","20","0","1","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","10","20","20","0","1","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","12","20","20","0","1","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "1","MATCH","1","19","20","20","0","1","","0.3","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","4","20","20","0","1","","0.25","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","5","20","20","0","1","","0.25","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","15","20","20","0","1","","0.25","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "1","MATCH","1","11","20","20","0","1","","0.2","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "1","MATCH","1","14","20","20","0","1","","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","16","20","20","0","1","","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","18","20","20","0","1","","0.2","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","13","20","20","0","1","","0.15","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","20","20","20","0","1","","0.15","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=1, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","20","0","1","0.0145519152283669","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","20","20","0","1","0.023283064365387","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","20","20","0","1","0.0372529029846191","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MATCH","1","9","20","20","0","1","","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MATCH","1","17","20","20","0","1","","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "1","MATCH","1","6","20","20","0","1","","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "1","MATCH","1","7","20","20","0","1","","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "1","MATCH","1","8","20","20","0","1","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","10","20","20","0","1","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","12","20","20","0","1","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "1","MATCH","1","19","20","20","0","1","","0.3","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","4","20","20","0","1","","0.25","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","5","20","20","0","1","","0.25","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","15","20","20","0","1","","0.25","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "1","MATCH","1","11","20","20","0","1","","0.2","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "1","MATCH","1","14","20","20","0","1","","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","16","20","20","0","1","","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","18","20","20","0","1","","0.2","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","13","20","20","0","1","","0.15","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","20","20","20","0","1","","0.15","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=1, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","20","0","1","0.0145519152283669","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","20","20","0","1","0.023283064365387","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","20","20","0","1","0.0372529029846191","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MATCH","1","9","20","20","0","1","","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MATCH","1","17","20","20","0","1","","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "1","MATCH","1","6","20","20","0","1","","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "1","MATCH","1","7","20","20","0","1","","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "1","MATCH","1","8","20","20","0","1","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","10","20","20","0","1","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","12","20","20","0","1","","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "1","MATCH","1","19","20","20","0","1","","0.3","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","4","20","20","0","1","","0.25","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","5","20","20","0","1","","0.25","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","15","20","20","0","1","","0.25","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "1","MATCH","1","11","20","20","0","1","","0.2","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "1","MATCH","1","14","20","20","0","1","","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","16","20","20","0","1","","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","18","20","20","0","1","","0.2","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","13","20","20","0","1","","0.15","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","20","20","20","0","1","","0.15","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=1, doPsib="all", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","20","0","1","0.0145519152283669","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","20","20","0","1","0.023283064365387","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","20","20","0","1","0.0372529029846191","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MATCH","1","9","20","20","0","1","0.625","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MATCH","1","17","20","20","0","1","0.390625","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "1","MATCH","1","6","20","20","0","1","0.625","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "1","MATCH","1","7","20","20","0","1","0.625","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "1","MATCH","1","8","20","20","0","1","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","10","20","20","0","1","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","12","20","20","0","1","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "1","MATCH","1","19","20","20","0","1","1","0.3","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","4","20","20","0","1","1","0.25","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","5","20","20","0","1","1","0.25","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","15","20","20","0","1","0.625","0.25","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "1","MATCH","1","11","20","20","0","1","1","0.2","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "1","MATCH","1","14","20","20","0","1","0.625","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","16","20","20","0","1","0.625","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","18","20","20","0","1","1","0.2","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","13","20","20","0","1","1","0.15","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","20","20","20","0","1","1","0.15","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=1, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","20","0","1","0.0145519152283669","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","20","20","0","1","0.023283064365387","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","20","20","0","1","0.0372529029846191","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MATCH","1","9","20","20","0","1","0.625","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MATCH","1","17","20","20","0","1","0.390625","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "1","MATCH","1","6","20","20","0","1","0.625","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "1","MATCH","1","7","20","20","0","1","0.625","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "1","MATCH","1","8","20","20","0","1","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","10","20","20","0","1","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","12","20","20","0","1","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "1","MATCH","1","19","20","20","0","1","1","0.3","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","4","20","20","0","1","1","0.25","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","5","20","20","0","1","1","0.25","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","15","20","20","0","1","0.625","0.25","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "1","MATCH","1","11","20","20","0","1","1","0.2","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "1","MATCH","1","14","20","20","0","1","0.625","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","16","20","20","0","1","0.625","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","18","20","20","0","1","1","0.2","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","13","20","20","0","1","1","0.15","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","20","20","20","0","1","1","0.15","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=1, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","20","0","1","0.0145519152283669","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","20","20","0","1","0.023283064365387","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","20","20","0","1","0.0372529029846191","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MATCH","1","9","20","20","0","1","0.625","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MATCH","1","17","20","20","0","1","0.390625","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "1","MATCH","1","6","20","20","0","1","0.625","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "1","MATCH","1","7","20","20","0","1","0.625","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "1","MATCH","1","8","20","20","0","1","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","10","20","20","0","1","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","12","20","20","0","1","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "1","MATCH","1","19","20","20","0","1","1","0.3","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","4","20","20","0","1","1","0.25","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","5","20","20","0","1","1","0.25","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","15","20","20","0","1","0.625","0.25","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "1","MATCH","1","11","20","20","0","1","1","0.2","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "1","MATCH","1","14","20","20","0","1","0.625","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","16","20","20","0","1","0.625","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","18","20","20","0","1","1","0.2","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","13","20","20","0","1","1","0.15","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","20","20","20","0","1","1","0.15","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample3, cutHeight=1, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","20","20","0","1","0.0145519152283669","","AAA","103","107","202","219","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","3","20","20","0","1","0.023283064365387","0.95","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","908","910","1002","1008"
  "1","MATCH","1","2","20","20","0","1","0.0372529029846191","0.9","AAA","103","107","-99","-99","310","317","412","416","508","514","606","611","708","708","809","813","-99","-99","1002","1008"
  "1","MATCH","1","9","20","20","0","1","0.625","0.4","AAD","103","115","202","219","306","311","411","416","501","510","-99","-99","-99","-99","-99","-99","-99","-99","1008","1020"
  "1","MATCH","1","17","20","20","0","1","0.390625","0.4","AAF","103","107","202","219","307","311","411","416","514","514","608","617","708","718","807","819","904","904","1001","1008"
  "1","MATCH","1","6","20","20","0","1","0.625","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","703","802","807","908","910","1001","1004"
  "1","MATCH","1","7","20","20","0","1","0.625","0.3","AAC","117","117","206","219","302","317","411","411","514","514","-99","-99","703","718","802","807","908","910","1001","1004"
  "1","MATCH","1","8","20","20","0","1","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","10","20","20","0","1","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1008"
  "1","MATCH","1","12","20","20","0","1","0.625","0.3","AAD","103","115","202","219","306","311","411","416","501","510","604","604","708","718","811","819","-99","-99","1008","1020"
  "1","MATCH","1","19","20","20","0","1","1","0.3","AAG","107","107","202","202","-99","-99","409","411","-99","-99","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","4","20","20","0","1","1","0.25","AAB","103","112","-99","-99","306","316","411","411","504","514","608","608","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","5","20","20","0","1","1","0.25","AAB","103","112","202","206","306","316","411","411","504","504","-99","-99","708","712","817","819","903","908","1001","1008"
  "1","MATCH","1","15","20","20","0","1","0.625","0.25","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","-99","-99"
  "1","MATCH","1","11","20","20","0","1","1","0.2","AAD","103","115","-99","-99","306","311","411","416","501","510","604","604","708","718","811","819","903","908","1008","1020"
  "1","MATCH","1","14","20","20","0","1","0.625","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","16","20","20","0","1","0.625","0.2","AAE","115","116","202","219","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","18","20","20","0","1","1","0.2","AAG","107","112","202","202","306","312","409","409","501","514","604","608","708","718","817","817","908","919","1001","1004"
  "1","MATCH","1","13","20","20","0","1","1","0.15","AAE","115","116","202","202","302","313","409","411","501","504","606","608","718","718","807","812","908","919","1001","1001"
  "1","MATCH","1","20","20","20","0","1","1","0.15","AAG","107","112","202","202","306","312","409","411","501","501","604","608","708","718","817","817","908","919","1001","1004"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0, doPsib="missing", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","0","1","1e-05","0.000980742754800246","","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "2","UNIQUE","2","2","1","0","1","1e-05","0.00479503853426713","","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "3","UNIQUE","3","3","1","0","1","1e-05","0.001187437482287","","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "4","UNIQUE","4","4","1","0","1","1e-05","0.00564877446859209","","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "5","UNIQUE","5","5","1","0","1","1e-05","0.0014726112166587","","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "6","UNIQUE","6","6","1","0","1","1e-05","0.00415459490543665","","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "7","UNIQUE","7","7","1","0","1","1e-05","0.00714247379268364","","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "8","UNIQUE","8","8","1","0","1","1e-05","0.0139280983478715","","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "9","UNIQUE","9","9","1","0","1","1e-05","0.000836113499844471","","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "10","UNIQUE","10","10","1","0","1","1e-05","0.0021963557533278","","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "11","UNIQUE","11","11","1","0","1","1e-05","0.00940251754934618","","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "12","UNIQUE","12","12","1","0","1","1e-05","0.00389034592905016","","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "13","UNIQUE","13","13","1","0","1","1e-05","0.000465601496674786","","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "14","UNIQUE","14","14","1","0","1","1e-05","0.00120920416682314","","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "15","UNIQUE","15","15","1","0","1","1e-05","0.00176593963756738","","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "16","UNIQUE","16","16","1","0","1","1e-05","0.00104136414353425","","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "17","UNIQUE","17","17","1","0","1","1e-05","0.00172565036835893","","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "18","UNIQUE","18","18","1","0","1","1e-05","0.00139660678854913","","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "19","UNIQUE","19","19","1","0","1","1e-05","0.00280680743388935","","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "20","UNIQUE","20","20","1","0","1","1e-05","0.00475263719075459","","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","0","1","1e-05","0.000980742754800246","","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "2","UNIQUE","2","2","1","0","1","1e-05","0.00479503853426713","","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "3","UNIQUE","3","3","1","0","1","1e-05","0.001187437482287","","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "4","UNIQUE","4","4","1","0","1","1e-05","0.00564877446859209","","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "5","UNIQUE","5","5","1","0","1","1e-05","0.0014726112166587","","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "6","UNIQUE","6","6","1","0","1","1e-05","0.00415459490543665","","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "7","UNIQUE","7","7","1","0","1","1e-05","0.00714247379268364","","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "8","UNIQUE","8","8","1","0","1","1e-05","0.0139280983478715","","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "9","UNIQUE","9","9","1","0","1","1e-05","0.000836113499844471","","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "10","UNIQUE","10","10","1","0","1","1e-05","0.0021963557533278","","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "11","UNIQUE","11","11","1","0","1","1e-05","0.00940251754934618","","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "12","UNIQUE","12","12","1","0","1","1e-05","0.00389034592905016","","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "13","UNIQUE","13","13","1","0","1","1e-05","0.000465601496674786","","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "14","UNIQUE","14","14","1","0","1","1e-05","0.00120920416682314","","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "15","UNIQUE","15","15","1","0","1","1e-05","0.00176593963756738","","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "16","UNIQUE","16","16","1","0","1","1e-05","0.00104136414353425","","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "17","UNIQUE","17","17","1","0","1","1e-05","0.00172565036835893","","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "18","UNIQUE","18","18","1","0","1","1e-05","0.00139660678854913","","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "19","UNIQUE","19","19","1","0","1","1e-05","0.00280680743388935","","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "20","UNIQUE","20","20","1","0","1","1e-05","0.00475263719075459","","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","0","1","1e-05","0.000980742754800246","","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "2","UNIQUE","2","2","1","0","1","1e-05","0.00479503853426713","","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "3","UNIQUE","3","3","1","0","1","1e-05","0.001187437482287","","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "4","UNIQUE","4","4","1","0","1","1e-05","0.00564877446859209","","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "5","UNIQUE","5","5","1","0","1","1e-05","0.0014726112166587","","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "6","UNIQUE","6","6","1","0","1","1e-05","0.00415459490543665","","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "7","UNIQUE","7","7","1","0","1","1e-05","0.00714247379268364","","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "8","UNIQUE","8","8","1","0","1","1e-05","0.0139280983478715","","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "9","UNIQUE","9","9","1","0","1","1e-05","0.000836113499844471","","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "10","UNIQUE","10","10","1","0","1","1e-05","0.0021963557533278","","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "11","UNIQUE","11","11","1","0","1","1e-05","0.00940251754934618","","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "12","UNIQUE","12","12","1","0","1","1e-05","0.00389034592905016","","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "13","UNIQUE","13","13","1","0","1","1e-05","0.000465601496674786","","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "14","UNIQUE","14","14","1","0","1","1e-05","0.00120920416682314","","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "15","UNIQUE","15","15","1","0","1","1e-05","0.00176593963756738","","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "16","UNIQUE","16","16","1","0","1","1e-05","0.00104136414353425","","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "17","UNIQUE","17","17","1","0","1","1e-05","0.00172565036835893","","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "18","UNIQUE","18","18","1","0","1","1e-05","0.00139660678854913","","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "19","UNIQUE","19","19","1","0","1","1e-05","0.00280680743388935","","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "20","UNIQUE","20","20","1","0","1","1e-05","0.00475263719075459","","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","0","1","1e-05","0.000980742754800246","","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "2","UNIQUE","2","2","1","0","1","1e-05","0.00479503853426713","","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "3","UNIQUE","3","3","1","0","1","1e-05","0.001187437482287","","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "4","UNIQUE","4","4","1","0","1","1e-05","0.00564877446859209","","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "5","UNIQUE","5","5","1","0","1","1e-05","0.0014726112166587","","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "6","UNIQUE","6","6","1","0","1","1e-05","0.00415459490543665","","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "7","UNIQUE","7","7","1","0","1","1e-05","0.00714247379268364","","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "8","UNIQUE","8","8","1","0","1","1e-05","0.0139280983478715","","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "9","UNIQUE","9","9","1","0","1","1e-05","0.000836113499844471","","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "10","UNIQUE","10","10","1","0","1","1e-05","0.0021963557533278","","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "11","UNIQUE","11","11","1","0","1","1e-05","0.00940251754934618","","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "12","UNIQUE","12","12","1","0","1","1e-05","0.00389034592905016","","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "13","UNIQUE","13","13","1","0","1","1e-05","0.000465601496674786","","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "14","UNIQUE","14","14","1","0","1","1e-05","0.00120920416682314","","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "15","UNIQUE","15","15","1","0","1","1e-05","0.00176593963756738","","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "16","UNIQUE","16","16","1","0","1","1e-05","0.00104136414353425","","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "17","UNIQUE","17","17","1","0","1","1e-05","0.00172565036835893","","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "18","UNIQUE","18","18","1","0","1","1e-05","0.00139660678854913","","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "19","UNIQUE","19","19","1","0","1","1e-05","0.00280680743388935","","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "20","UNIQUE","20","20","1","0","1","1e-05","0.00475263719075459","","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0, doPsib="all", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","0","1","1e-05","0.000980742754800246","","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "2","UNIQUE","2","2","1","0","1","1e-05","0.00479503853426713","","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "3","UNIQUE","3","3","1","0","1","1e-05","0.001187437482287","","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "4","UNIQUE","4","4","1","0","1","1e-05","0.00564877446859209","","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "5","UNIQUE","5","5","1","0","1","1e-05","0.0014726112166587","","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "6","UNIQUE","6","6","1","0","1","1e-05","0.00415459490543665","","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "7","UNIQUE","7","7","1","0","1","1e-05","0.00714247379268364","","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "8","UNIQUE","8","8","1","0","1","1e-05","0.0139280983478715","","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "9","UNIQUE","9","9","1","0","1","1e-05","0.000836113499844471","","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "10","UNIQUE","10","10","1","0","1","1e-05","0.0021963557533278","","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "11","UNIQUE","11","11","1","0","1","1e-05","0.00940251754934618","","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "12","UNIQUE","12","12","1","0","1","1e-05","0.00389034592905016","","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "13","UNIQUE","13","13","1","0","1","1e-05","0.000465601496674786","","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "14","UNIQUE","14","14","1","0","1","1e-05","0.00120920416682314","","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "15","UNIQUE","15","15","1","0","1","1e-05","0.00176593963756738","","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "16","UNIQUE","16","16","1","0","1","1e-05","0.00104136414353425","","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "17","UNIQUE","17","17","1","0","1","1e-05","0.00172565036835893","","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "18","UNIQUE","18","18","1","0","1","1e-05","0.00139660678854913","","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "19","UNIQUE","19","19","1","0","1","1e-05","0.00280680743388935","","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "20","UNIQUE","20","20","1","0","1","1e-05","0.00475263719075459","","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","0","1","1e-05","0.000980742754800246","","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "2","UNIQUE","2","2","1","0","1","1e-05","0.00479503853426713","","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "3","UNIQUE","3","3","1","0","1","1e-05","0.001187437482287","","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "4","UNIQUE","4","4","1","0","1","1e-05","0.00564877446859209","","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "5","UNIQUE","5","5","1","0","1","1e-05","0.0014726112166587","","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "6","UNIQUE","6","6","1","0","1","1e-05","0.00415459490543665","","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "7","UNIQUE","7","7","1","0","1","1e-05","0.00714247379268364","","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "8","UNIQUE","8","8","1","0","1","1e-05","0.0139280983478715","","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "9","UNIQUE","9","9","1","0","1","1e-05","0.000836113499844471","","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "10","UNIQUE","10","10","1","0","1","1e-05","0.0021963557533278","","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "11","UNIQUE","11","11","1","0","1","1e-05","0.00940251754934618","","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "12","UNIQUE","12","12","1","0","1","1e-05","0.00389034592905016","","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "13","UNIQUE","13","13","1","0","1","1e-05","0.000465601496674786","","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "14","UNIQUE","14","14","1","0","1","1e-05","0.00120920416682314","","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "15","UNIQUE","15","15","1","0","1","1e-05","0.00176593963756738","","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "16","UNIQUE","16","16","1","0","1","1e-05","0.00104136414353425","","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "17","UNIQUE","17","17","1","0","1","1e-05","0.00172565036835893","","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "18","UNIQUE","18","18","1","0","1","1e-05","0.00139660678854913","","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "19","UNIQUE","19","19","1","0","1","1e-05","0.00280680743388935","","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "20","UNIQUE","20","20","1","0","1","1e-05","0.00475263719075459","","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","0","1","1e-05","0.000980742754800246","","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "2","UNIQUE","2","2","1","0","1","1e-05","0.00479503853426713","","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "3","UNIQUE","3","3","1","0","1","1e-05","0.001187437482287","","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "4","UNIQUE","4","4","1","0","1","1e-05","0.00564877446859209","","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "5","UNIQUE","5","5","1","0","1","1e-05","0.0014726112166587","","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "6","UNIQUE","6","6","1","0","1","1e-05","0.00415459490543665","","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "7","UNIQUE","7","7","1","0","1","1e-05","0.00714247379268364","","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "8","UNIQUE","8","8","1","0","1","1e-05","0.0139280983478715","","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "9","UNIQUE","9","9","1","0","1","1e-05","0.000836113499844471","","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "10","UNIQUE","10","10","1","0","1","1e-05","0.0021963557533278","","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "11","UNIQUE","11","11","1","0","1","1e-05","0.00940251754934618","","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "12","UNIQUE","12","12","1","0","1","1e-05","0.00389034592905016","","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "13","UNIQUE","13","13","1","0","1","1e-05","0.000465601496674786","","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "14","UNIQUE","14","14","1","0","1","1e-05","0.00120920416682314","","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "15","UNIQUE","15","15","1","0","1","1e-05","0.00176593963756738","","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "16","UNIQUE","16","16","1","0","1","1e-05","0.00104136414353425","","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "17","UNIQUE","17","17","1","0","1","1e-05","0.00172565036835893","","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "18","UNIQUE","18","18","1","0","1","1e-05","0.00139660678854913","","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "19","UNIQUE","19","19","1","0","1","1e-05","0.00280680743388935","","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "20","UNIQUE","20","20","1","0","1","1e-05","0.00475263719075459","","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","0","1","1e-05","0.000980742754800246","","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "2","UNIQUE","2","2","1","0","1","1e-05","0.00479503853426713","","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "3","UNIQUE","3","3","1","0","1","1e-05","0.001187437482287","","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "4","UNIQUE","4","4","1","0","1","1e-05","0.00564877446859209","","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "5","UNIQUE","5","5","1","0","1","1e-05","0.0014726112166587","","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "6","UNIQUE","6","6","1","0","1","1e-05","0.00415459490543665","","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "7","UNIQUE","7","7","1","0","1","1e-05","0.00714247379268364","","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "8","UNIQUE","8","8","1","0","1","1e-05","0.0139280983478715","","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "9","UNIQUE","9","9","1","0","1","1e-05","0.000836113499844471","","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "10","UNIQUE","10","10","1","0","1","1e-05","0.0021963557533278","","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "11","UNIQUE","11","11","1","0","1","1e-05","0.00940251754934618","","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "12","UNIQUE","12","12","1","0","1","1e-05","0.00389034592905016","","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "13","UNIQUE","13","13","1","0","1","1e-05","0.000465601496674786","","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "14","UNIQUE","14","14","1","0","1","1e-05","0.00120920416682314","","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "15","UNIQUE","15","15","1","0","1","1e-05","0.00176593963756738","","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "16","UNIQUE","16","16","1","0","1","1e-05","0.00104136414353425","","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "17","UNIQUE","17","17","1","0","1","1e-05","0.00172565036835893","","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "18","UNIQUE","18","18","1","0","1","1e-05","0.00139660678854913","","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "19","UNIQUE","19","19","1","0","1","1e-05","0.00280680743388935","","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "20","UNIQUE","20","20","1","0","1","1e-05","0.00475263719075459","","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.3, doPsib="missing", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","6","0.7","0.3","0.000970336153579936","","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "2","UNIQUE","2","2","1","6","0.7","0.3","0.0114199241654126","","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "3","UNIQUE","3","3","1","6","0.7","0.3","0.00258486814914826","","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "4","CHECK_UNIQUE","4","4","5","6","0.7","0.3","0.00412604217275714","","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "4","MATCH","4","7","5","6","0.7","0.3","0.00858753492866526","0.9","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "4","MULTIPLE_MATCH","4","5","5","6","0.7","0.3","0.00975484487134963","0.75","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "4","MULTIPLE_MATCH","4","6","5","6","0.7","0.3","0.0212037899473216","0.75","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "4","MULTIPLE_MATCH","4","8","5","6","0.7","0.3","","0.7","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "5","CHECK_UNIQUE","8","8","4","6","0.7","0.3","0.0118654243755321","","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "5","MULTIPLE_MATCH","8","5","4","6","0.7","0.3","","0.75","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "5","MULTIPLE_MATCH","8","4","4","6","0.7","0.3","","0.7","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "5","MULTIPLE_MATCH","8","6","4","6","0.7","0.3","0.0584509287561689","0.7","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "6","UNIQUE","9","9","3","6","0.7","0.3","0.000782983066349133","","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "6","MATCH","9","10","3","6","0.7","0.3","0.00535702390663779","0.85","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "6","MATCH","9","11","3","6","0.7","0.3","","0.75","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "7","UNIQUE","12","12","2","6","0.7","0.3","0.00516960889378471","","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "7","MATCH","12","13","2","6","0.7","0.3","","0.75","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "8","UNIQUE","14","14","1","6","0.7","0.3","0.00168418498155963","","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "9","UNIQUE","15","15","3","6","0.7","0.3","0.00131787729432489","","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "9","MATCH","15","17","3","6","0.7","0.3","0.00354350409428434","0.9","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "9","MATCH","15","16","3","6","0.7","0.3","","0.85","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "10","UNIQUE","18","18","3","6","0.7","0.3","0.00116794736834283","","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "10","MATCH","18","19","3","6","0.7","0.3","","0.85","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "10","MATCH","18","20","3","6","0.7","0.3","","0.8","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.3, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","6","0.7","0.3","0.000950800680090461","","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "2","UNIQUE","2","2","1","6","0.7","0.3","0.00917617032482556","","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "3","UNIQUE","3","3","1","6","0.7","0.3","0.00181136651868696","","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "4","UNIQUE","4","4","5","6","0.7","0.3","0.000885558481089452","","AAC","108","118","202","208","304","307","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "4","MATCH","4","5","5","6","0.7","0.3","0.000885558481089452","0.9","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "4","MATCH","4","6","5","6","0.7","0.3","0.00210267926168052","0.9","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "4","MATCH","4","7","5","6","0.7","0.3","0.00473976728471236","0.85","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "4","MATCH","4","8","5","6","0.7","0.3","","0.75","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "5","UNIQUE","9","9","3","6","0.7","0.3","0.000817937933760862","","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","904","920","1005","1013"
  "5","MATCH","9","10","3","6","0.7","0.3","0.00210362995578933","0.9","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "5","MATCH","9","11","3","6","0.7","0.3","","0.8","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "6","UNIQUE","12","12","2","6","0.7","0.3",NA,"","AAE","104","104","202","208","304","311","408","408","501","501","605","620","705","720","810","819","902","906","1007","1019"
  "6","MATCH","12","13","2","6","0.7","0.3","","0.9","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "7","UNIQUE","14","14","1","6","0.7","0.3","0.00192863397614641","","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "8","UNIQUE","15","15","3","6","0.7","0.3","0.0014624797826356","","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "8","MATCH","15","17","3","6","0.7","0.3","0.00142085448280566","0.95","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "8","MATCH","15","16","3","6","0.7","0.3","","0.9","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "9","UNIQUE","18","18","3","6","0.7","0.3","0.00114167844288815","","AAH","104","104","202","208","304","311","413","418","501","501","608","608","717","717","810","819","902","902","1007","1007"
  "9","MATCH","18","19","3","6","0.7","0.3","","0.9","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "9","MATCH","18","20","3","6","0.7","0.3","","0.85","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.3, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","6","0.7","0.3","0.000959817213223917","","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "2","UNIQUE","2","2","1","6","0.7","0.3","0.0102277356098419","","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "3","UNIQUE","3","3","1","6","0.7","0.3","0.00204469634361509","","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "4","UNIQUE","5","5","5","6","0.7","0.3","0.000869082964179965","","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "4","MATCH","5","6","5","6","0.7","0.3","0.00487869565147266","0.8","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "4","MATCH","5","4","5","6","0.7","0.3","0.00849256631025566","0.75","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "4","MATCH","5","7","5","6","0.7","0.3","0.0103884922043602","0.75","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "4","MATCH","5","8","5","6","0.7","0.3","","0.75","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "5","UNIQUE","9","9","3","6","0.7","0.3","0.000723930412067104","","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "5","MATCH","9","10","3","6","0.7","0.3","0.00488202340864682","0.85","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "5","MATCH","9","11","3","6","0.7","0.3","","0.75","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "6","UNIQUE","13","13","2","6","0.7","0.3","0.000731568905530522","","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "6","MATCH","13","12","2","6","0.7","0.3","","0.75","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "7","UNIQUE","14","14","1","6","0.7","0.3","0.00222133169021528","","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "8","UNIQUE","15","15","3","6","0.7","0.3","0.00140502061380095","","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "8","MATCH","15","17","3","6","0.7","0.3","0.00377781476241915","0.9","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "8","MATCH","15","16","3","6","0.7","0.3","","0.85","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "9","UNIQUE","18","18","3","6","0.7","0.3","0.00133247047497849","","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "9","MATCH","18","19","3","6","0.7","0.3","","0.85","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "9","MATCH","18","20","3","6","0.7","0.3","","0.8","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.3, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","6","0.7","0.3","0.00107970375689292","","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "2","UNIQUE","2","2","1","6","0.7","0.3","0.00836889614464382","","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "3","UNIQUE","3","3","1","6","0.7","0.3","0.00170744103126851","","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "4","UNIQUE","5","5","5","6","0.7","0.3","0.000937459344450006","","AAC","108","118","202","208","304","307","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "4","MATCH","5","6","5","6","0.7","0.3","0.0022027868400588","0.9","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "4","MATCH","5","4","5","6","0.7","0.3","0.00383449074157988","0.85","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "4","MATCH","5","7","5","6","0.7","0.3","0.00469052294928678","0.85","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "4","MATCH","5","8","5","6","0.7","0.3","","0.75","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "5","UNIQUE","9","9","3","6","0.7","0.3","0.000807853313512581","","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","904","920","1005","1013"
  "5","MATCH","9","10","3","6","0.7","0.3","0.00200375434957974","0.9","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "5","MATCH","9","11","3","6","0.7","0.3","","0.8","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "6","UNIQUE","13","13","2","6","0.7","0.3","0.000584773909444319","","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "6","MATCH","13","12","2","6","0.7","0.3","","0.75","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "7","UNIQUE","14","14","1","6","0.7","0.3","0.00197062903785828","","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "8","UNIQUE","15","15","3","6","0.7","0.3","0.00156880803213845","","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "8","MATCH","15","17","3","6","0.7","0.3","0.00152415640311169","0.95","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "8","MATCH","15","16","3","6","0.7","0.3","","0.9","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "9","UNIQUE","18","18","3","6","0.7","0.3","0.00111383654398202","","AAH","104","104","202","208","304","311","413","418","501","501","608","608","717","717","810","819","902","902","1007","1007"
  "9","MATCH","18","19","3","6","0.7","0.3","","0.9","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "9","MATCH","18","20","3","6","0.7","0.3","","0.85","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.3, doPsib="all", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","6","0.7","0.3","0.000970336153579936","","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "2","UNIQUE","2","2","1","6","0.7","0.3","0.0114199241654126","","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "3","UNIQUE","3","3","1","6","0.7","0.3","0.00258486814914826","","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "4","CHECK_UNIQUE","4","4","5","6","0.7","0.3","0.00412604217275714","","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "4","MATCH","4","7","5","6","0.7","0.3","0.00858753492866526","0.9","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "4","MULTIPLE_MATCH","4","5","5","6","0.7","0.3","0.00975484487134963","0.75","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "4","MULTIPLE_MATCH","4","6","5","6","0.7","0.3","0.0212037899473216","0.75","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "4","MULTIPLE_MATCH","4","8","5","6","0.7","0.3","0.164345517754555","0.7","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "5","CHECK_UNIQUE","8","8","4","6","0.7","0.3","0.0118654243755321","","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "5","MULTIPLE_MATCH","8","5","4","6","0.7","0.3","0.0394483634403774","0.75","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "5","MULTIPLE_MATCH","8","4","4","6","0.7","0.3","0.164345517754555","0.7","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "5","MULTIPLE_MATCH","8","6","4","6","0.7","0.3","0.0584509287561689","0.7","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "6","UNIQUE","9","9","3","6","0.7","0.3","0.000782983066349133","","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "6","MATCH","9","10","3","6","0.7","0.3","0.00535702390663779","0.85","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "6","MATCH","9","11","3","6","0.7","0.3","0.0349696617107838","0.75","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "7","UNIQUE","12","12","2","6","0.7","0.3","0.00516960889378471","","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "7","MATCH","12","13","2","6","0.7","0.3","0.0222283719980624","0.75","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "8","UNIQUE","14","14","1","6","0.7","0.3","0.00168418498155963","","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "9","UNIQUE","15","15","3","6","0.7","0.3","0.00131787729432489","","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "9","MATCH","15","17","3","6","0.7","0.3","0.00354350409428434","0.9","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "9","MATCH","15","16","3","6","0.7","0.3","0.00444783586834649","0.85","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "10","UNIQUE","18","18","3","6","0.7","0.3","0.00116794736834283","","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "10","MATCH","18","19","3","6","0.7","0.3","0.0068697512435113","0.85","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "10","MATCH","18","20","3","6","0.7","0.3","0.0123872807869038","0.8","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.3, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","6","0.7","0.3","0.000950800680090461","","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "2","UNIQUE","2","2","1","6","0.7","0.3","0.00917617032482556","","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "3","UNIQUE","3","3","1","6","0.7","0.3","0.00181136651868696","","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "4","UNIQUE","4","4","5","6","0.7","0.3","0.000885558481089452","","AAC","108","118","202","208","304","307","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "4","MATCH","4","5","5","6","0.7","0.3","0.000885558481089452","0.9","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "4","MATCH","4","6","5","6","0.7","0.3","0.00210267926168052","0.9","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "4","MATCH","4","7","5","6","0.7","0.3","0.00473976728471236","0.85","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "4","MATCH","4","8","5","6","0.7","0.3","0.025492892733642","0.75","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "5","UNIQUE","9","9","3","6","0.7","0.3","0.000817937933760862","","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","904","920","1005","1013"
  "5","MATCH","9","10","3","6","0.7","0.3","0.00210362995578933","0.9","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "5","MATCH","9","11","3","6","0.7","0.3","0.0137576337562807","0.8","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "6","UNIQUE","12","12","2","6","0.7","0.3","0.00233509170823641","","AAE","104","104","202","208","304","311","408","408","501","501","605","620","705","720","810","819","902","906","1007","1019"
  "6","MATCH","12","13","2","6","0.7","0.3","0.00233509170823641","0.9","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "7","UNIQUE","14","14","1","6","0.7","0.3","0.00192863397614641","","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "8","UNIQUE","15","15","3","6","0.7","0.3","0.0014624797826356","","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "8","MATCH","15","17","3","6","0.7","0.3","0.00142085448280566","0.95","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "8","MATCH","15","16","3","6","0.7","0.3","0.00183299260143815","0.9","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "9","UNIQUE","18","18","3","6","0.7","0.3","0.00114167844288815","","AAH","104","104","202","208","304","311","413","418","501","501","608","608","717","717","810","819","902","902","1007","1007"
  "9","MATCH","18","19","3","6","0.7","0.3","0.00495293659891364","0.9","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "9","MATCH","18","20","3","6","0.7","0.3","0.00858935322867182","0.85","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.3, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","6","0.7","0.3","0.000959817213223917","","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "2","UNIQUE","2","2","1","6","0.7","0.3","0.0102277356098419","","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "3","UNIQUE","3","3","1","6","0.7","0.3","0.00204469634361509","","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "4","UNIQUE","5","5","5","6","0.7","0.3","0.000869082964179965","","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "4","MATCH","5","6","5","6","0.7","0.3","0.00487869565147266","0.8","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "4","MATCH","5","4","5","6","0.7","0.3","0.00849256631025566","0.75","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "4","MATCH","5","7","5","6","0.7","0.3","0.0103884922043602","0.75","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "4","MATCH","5","8","5","6","0.7","0.3","0.0379076395685951","0.75","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "5","UNIQUE","9","9","3","6","0.7","0.3","0.000723930412067104","","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "5","MATCH","9","10","3","6","0.7","0.3","0.00488202340864682","0.85","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "5","MATCH","9","11","3","6","0.7","0.3","0.0319281867330846","0.75","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "6","UNIQUE","13","13","2","6","0.7","0.3","0.000731568905530522","","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "6","MATCH","13","12","2","6","0.7","0.3","0.0272925067650758","0.75","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "7","UNIQUE","14","14","1","6","0.7","0.3","0.00222133169021528","","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "8","UNIQUE","15","15","3","6","0.7","0.3","0.00140502061380095","","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "8","MATCH","15","17","3","6","0.7","0.3","0.00377781476241915","0.9","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "8","MATCH","15","16","3","6","0.7","0.3","0.00446597298215438","0.85","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "9","UNIQUE","18","18","3","6","0.7","0.3","0.00133247047497849","","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "9","MATCH","18","19","3","6","0.7","0.3","0.00909254321617978","0.85","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "9","MATCH","18","20","3","6","0.7","0.3","0.0140814275558417","0.8","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.3, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1","1","1","6","0.7","0.3","0.00107970375689292","","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "2","UNIQUE","2","2","1","6","0.7","0.3","0.00836889614464382","","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "3","UNIQUE","3","3","1","6","0.7","0.3","0.00170744103126851","","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "4","UNIQUE","5","5","5","6","0.7","0.3","0.000937459344450006","","AAC","108","118","202","208","304","307","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "4","MATCH","5","6","5","6","0.7","0.3","0.0022027868400588","0.9","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "4","MATCH","5","4","5","6","0.7","0.3","0.00383449074157988","0.85","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "4","MATCH","5","7","5","6","0.7","0.3","0.00469052294928678","0.85","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "4","MATCH","5","8","5","6","0.7","0.3","0.0269869816850643","0.75","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "5","UNIQUE","9","9","3","6","0.7","0.3","0.000807853313512581","","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","904","920","1005","1013"
  "5","MATCH","9","10","3","6","0.7","0.3","0.00200375434957974","0.9","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "5","MATCH","9","11","3","6","0.7","0.3","0.0131044523316502","0.8","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "6","UNIQUE","13","13","2","6","0.7","0.3","0.000584773909444319","","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "6","MATCH","13","12","2","6","0.7","0.3","0.0215959597607048","0.75","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "7","UNIQUE","14","14","1","6","0.7","0.3","0.00197062903785828","","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "8","UNIQUE","15","15","3","6","0.7","0.3","0.00156880803213845","","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "8","MATCH","15","17","3","6","0.7","0.3","0.00152415640311169","0.95","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "8","MATCH","15","16","3","6","0.7","0.3","0.00183299260143815","0.9","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "9","UNIQUE","18","18","3","6","0.7","0.3","0.00111383654398202","","AAH","104","104","202","208","304","311","413","418","501","501","608","608","717","717","810","819","902","902","1007","1007"
  "9","MATCH","18","19","3","6","0.7","0.3","0.00524321859738476","0.9","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "9","MATCH","18","20","3","6","0.7","0.3","0.00837988627608865","0.85","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.5, doPsib="missing", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","16","","","10","0.5","0.5","","","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "","UNCLASSIFIED","18","","","10","0.5","0.5","","","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "1","CHECK_UNIQUE","1","1","10","10","0.5","0.5","0.00494152859405235","","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "1","MULTIPLE_MATCH","1","8","10","10","0.5","0.5","","0.6","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "1","MATCH","1","6","10","10","0.5","0.5","","0.55","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "1","MATCH","1","15","10","10","0.5","0.5","","0.55","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "1","MATCH","1","19","10","10","0.5","0.5","","0.55","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "1","MULTIPLE_MATCH","1","4","10","10","0.5","0.5","","0.5","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MATCH","1","5","10","10","0.5","0.5","","0.5","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "1","MULTIPLE_MATCH","1","11","10","10","0.5","0.5","","0.5","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "1","MATCH","1","17","10","10","0.5","0.5","","0.5","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "1","MATCH","1","20","10","10","0.5","0.5","","0.5","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "2","CHECK_UNIQUE","2","2","7","10","0.5","0.5","0.0188610344021409","","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "2","MATCH","2","3","7","10","0.5","0.5","","0.65","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "2","MATCH","2","7","7","10","0.5","0.5","","0.6","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "2","MULTIPLE_MATCH","2","4","7","10","0.5","0.5","","0.55","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "2","MATCH","2","12","7","10","0.5","0.5","","0.55","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "2","MATCH","2","13","7","10","0.5","0.5","","0.55","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "2","MULTIPLE_MATCH","2","14","7","10","0.5","0.5","","0.5","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "3","CHECK_UNIQUE","9","9","5","10","0.5","0.5","0.00212330299662596","","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "3","MATCH","9","10","5","10","0.5","0.5","0.010258343648191","0.85","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "3","MULTIPLE_MATCH","9","11","5","10","0.5","0.5","","0.75","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "3","MULTIPLE_MATCH","9","14","5","10","0.5","0.5","","0.55","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "3","MULTIPLE_MATCH","9","8","5","10","0.5","0.5","","0.5","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.5, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","CHECK_UNIQUE","1","1","10","10","0.5","0.5","0.00160822601126208","","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "1","MATCH","1","8","10","10","0.5","0.5","","0.6","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "1","MULTIPLE_MATCH","1","6","10","10","0.5","0.5","","0.55","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "1","MULTIPLE_MATCH","1","15","10","10","0.5","0.5","","0.55","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "1","MULTIPLE_MATCH","1","19","10","10","0.5","0.5","","0.55","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "1","MULTIPLE_MATCH","1","4","10","10","0.5","0.5","","0.5","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MATCH","1","5","10","10","0.5","0.5","","0.5","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "1","MULTIPLE_MATCH","1","11","10","10","0.5","0.5","","0.5","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "1","MULTIPLE_MATCH","1","17","10","10","0.5","0.5","","0.5","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "1","MULTIPLE_MATCH","1","20","10","10","0.5","0.5","","0.5","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "2","CHECK_UNIQUE","2","2","6","10","0.5","0.5","0.009859926234375","","AAB","108","118","202","202","307","311","408","408","501","505","605","608","705","720","801","810","902","902","1019","1019"
  "2","MATCH","2","3","6","10","0.5","0.5","","0.8","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "2","MULTIPLE_MATCH","2","7","6","10","0.5","0.5","","0.6","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "2","MULTIPLE_MATCH","2","4","6","10","0.5","0.5","","0.55","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "2","MULTIPLE_MATCH","2","12","6","10","0.5","0.5","","0.5","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "2","MULTIPLE_MATCH","2","13","6","10","0.5","0.5","","0.5","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "3","CHECK_UNIQUE","9","9","5","10","0.5","0.5","0.000923759825021556","","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","904","920","1005","1013"
  "3","MATCH","9","10","5","10","0.5","0.5","0.00225273357900786","0.9","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "3","MULTIPLE_MATCH","9","11","5","10","0.5","0.5","","0.8","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "3","MATCH","9","14","5","10","0.5","0.5","","0.5","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "3","MULTIPLE_MATCH","9","17","5","10","0.5","0.5","","0.5","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "4","CHECK_UNIQUE","12","12","6","10","0.5","0.5",NA,"","AAE","104","104","202","208","304","311","408","408","501","501","605","620","705","720","810","819","902","906","1007","1019"
  "4","MULTIPLE_MATCH","12","13","6","10","0.5","0.5","","0.9","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "4","MATCH","12","18","6","10","0.5","0.5","","0.65","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "4","MULTIPLE_MATCH","12","19","6","10","0.5","0.5","","0.6","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "4","MULTIPLE_MATCH","12","2","6","10","0.5","0.5","","0.55","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "4","MULTIPLE_MATCH","12","20","6","10","0.5","0.5","","0.55","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "5","CHECK_UNIQUE","15","15","8","10","0.5","0.5","0.00208939483785447","","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "5","MULTIPLE_MATCH","15","17","8","10","0.5","0.5","0.00231836961460565","0.95","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "5","MATCH","15","16","8","10","0.5","0.5","","0.9","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "5","MULTIPLE_MATCH","15","11","8","10","0.5","0.5","","0.6","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "5","MULTIPLE_MATCH","15","6","8","10","0.5","0.5","","0.55","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "5","MULTIPLE_MATCH","15","19","8","10","0.5","0.5","","0.55","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "5","MULTIPLE_MATCH","15","1","8","10","0.5","0.5","","0.5","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "5","MULTIPLE_MATCH","15","7","8","10","0.5","0.5","","0.5","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.5, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","16","","","10","0.5","0.5","","","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "1","CHECK_UNIQUE","1","1","10","10","0.5","0.5","0.00141601780271555","","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "1","MULTIPLE_MATCH","1","8","10","10","0.5","0.5","","0.6","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "1","MULTIPLE_MATCH","1","6","10","10","0.5","0.5","","0.55","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "1","MULTIPLE_MATCH","1","15","10","10","0.5","0.5","","0.55","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "1","MULTIPLE_MATCH","1","19","10","10","0.5","0.5","","0.55","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "1","MULTIPLE_MATCH","1","4","10","10","0.5","0.5","","0.5","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MULTIPLE_MATCH","1","5","10","10","0.5","0.5","","0.5","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "1","MULTIPLE_MATCH","1","11","10","10","0.5","0.5","","0.5","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "1","MULTIPLE_MATCH","1","17","10","10","0.5","0.5","","0.5","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "1","MULTIPLE_MATCH","1","20","10","10","0.5","0.5","","0.5","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "2","CHECK_UNIQUE","3","3","7","10","0.5","0.5","0.00233316215310745","","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "2","MULTIPLE_MATCH","3","2","7","10","0.5","0.5","","0.65","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "2","MULTIPLE_MATCH","3","7","7","10","0.5","0.5","","0.55","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "2","MULTIPLE_MATCH","3","4","7","10","0.5","0.5","","0.5","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "2","MULTIPLE_MATCH","3","8","7","10","0.5","0.5","","0.5","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "2","MULTIPLE_MATCH","3","11","7","10","0.5","0.5","","0.5","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "2","MULTIPLE_MATCH","3","12","7","10","0.5","0.5","","0.5","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "3","CHECK_UNIQUE","5","5","7","10","0.5","0.5","0.00149664118969753","","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "3","MULTIPLE_MATCH","5","6","7","10","0.5","0.5","0.00761940277305603","0.8","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "3","MULTIPLE_MATCH","5","4","7","10","0.5","0.5","0.0120533976123047","0.75","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "3","MULTIPLE_MATCH","5","7","7","10","0.5","0.5","0.0140415869091797","0.75","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "3","MULTIPLE_MATCH","5","8","7","10","0.5","0.5","","0.75","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "3","MULTIPLE_MATCH","5","1","7","10","0.5","0.5","","0.5","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "3","MULTIPLE_MATCH","5","19","7","10","0.5","0.5","","0.5","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "4","CHECK_UNIQUE","9","9","5","10","0.5","0.5","0.000888477705401718","","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "4","MATCH","9","10","5","10","0.5","0.5","0.00467914455972412","0.85","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "4","MULTIPLE_MATCH","9","11","5","10","0.5","0.5","","0.75","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "4","MATCH","9","14","5","10","0.5","0.5","","0.55","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "4","MULTIPLE_MATCH","9","8","5","10","0.5","0.5","","0.5","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "5","CHECK_UNIQUE","13","13","8","10","0.5","0.5","0.000514293435233108","","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "5","MULTIPLE_MATCH","13","12","8","10","0.5","0.5","","0.75","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "5","MATCH","13","18","8","10","0.5","0.5","","0.65","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "5","MULTIPLE_MATCH","13","19","8","10","0.5","0.5","","0.65","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "5","MULTIPLE_MATCH","13","2","8","10","0.5","0.5","","0.55","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "5","MULTIPLE_MATCH","13","20","8","10","0.5","0.5","","0.55","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "5","MULTIPLE_MATCH","13","15","8","10","0.5","0.5","","0.5","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "5","MULTIPLE_MATCH","13","17","8","10","0.5","0.5","","0.5","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.5, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","CHECK_UNIQUE","1","1","10","10","0.5","0.5","0.00190650665144829","","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "1","MATCH","1","8","10","10","0.5","0.5","","0.6","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "1","MULTIPLE_MATCH","1","6","10","10","0.5","0.5","","0.55","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "1","MULTIPLE_MATCH","1","15","10","10","0.5","0.5","","0.55","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "1","MULTIPLE_MATCH","1","19","10","10","0.5","0.5","","0.55","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "1","MATCH","1","4","10","10","0.5","0.5","","0.5","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MATCH","1","5","10","10","0.5","0.5","","0.5","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "1","MULTIPLE_MATCH","1","11","10","10","0.5","0.5","","0.5","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "1","MULTIPLE_MATCH","1","17","10","10","0.5","0.5","","0.5","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "1","MULTIPLE_MATCH","1","20","10","10","0.5","0.5","","0.5","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "2","CHECK_UNIQUE","3","3","3","10","0.5","0.5","0.00171993140896903","","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","1019","1019"
  "2","MULTIPLE_MATCH","3","2","3","10","0.5","0.5","","0.7","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "2","MULTIPLE_MATCH","3","7","3","10","0.5","0.5","","0.5","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "3","CHECK_UNIQUE","9","9","5","10","0.5","0.5","0.00087824826278935","","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","904","920","1005","1013"
  "3","MATCH","9","10","5","10","0.5","0.5","0.00200926731495375","0.9","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "3","MULTIPLE_MATCH","9","11","5","10","0.5","0.5","","0.8","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "3","MATCH","9","14","5","10","0.5","0.5","","0.5","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "3","MULTIPLE_MATCH","9","17","5","10","0.5","0.5","","0.5","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "4","CHECK_UNIQUE","13","13","8","10","0.5","0.5","0.000513438462430128","","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "4","MATCH","13","12","8","10","0.5","0.5","","0.75","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "4","MATCH","13","18","8","10","0.5","0.5","","0.65","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "4","MULTIPLE_MATCH","13","19","8","10","0.5","0.5","","0.65","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "4","MULTIPLE_MATCH","13","2","8","10","0.5","0.5","","0.55","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "4","MULTIPLE_MATCH","13","20","8","10","0.5","0.5","","0.55","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "4","MULTIPLE_MATCH","13","15","8","10","0.5","0.5","","0.5","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "4","MULTIPLE_MATCH","13","17","8","10","0.5","0.5","","0.5","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "5","CHECK_UNIQUE","15","15","8","10","0.5","0.5","0.00237241571181342","","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "5","MULTIPLE_MATCH","15","17","8","10","0.5","0.5","0.00243247686907452","0.95","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "5","MATCH","15","16","8","10","0.5","0.5","","0.9","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "5","MULTIPLE_MATCH","15","11","8","10","0.5","0.5","","0.6","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "5","MULTIPLE_MATCH","15","6","8","10","0.5","0.5","","0.55","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "5","MULTIPLE_MATCH","15","19","8","10","0.5","0.5","","0.55","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "5","MULTIPLE_MATCH","15","1","8","10","0.5","0.5","","0.5","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "5","MULTIPLE_MATCH","15","7","8","10","0.5","0.5","","0.5","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.5, doPsib="all", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","16","","","10","0.5","0.5","","","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "","UNCLASSIFIED","18","","","10","0.5","0.5","","","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "1","CHECK_UNIQUE","1","1","10","10","0.5","0.5","0.00494152859405235","","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "1","MULTIPLE_MATCH","1","8","10","10","0.5","0.5","0.201388888888889","0.6","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "1","MATCH","1","6","10","10","0.5","0.5","0.402777777777778","0.55","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "1","MATCH","1","15","10","10","0.5","0.5","0.376157407407407","0.55","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "1","MATCH","1","19","10","10","0.5","0.5","0.2265625","0.55","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "1","MULTIPLE_MATCH","1","4","10","10","0.5","0.5","0.5","0.5","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MATCH","1","5","10","10","0.5","0.5","0.201388888888889","0.5","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "1","MULTIPLE_MATCH","1","11","10","10","0.5","0.5","0.694444444444444","0.5","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "1","MATCH","1","17","10","10","0.5","0.5","0.376157407407407","0.5","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "1","MATCH","1","20","10","10","0.5","0.5","0.2265625","0.5","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "2","CHECK_UNIQUE","2","2","7","10","0.5","0.5","0.0188610344021409","","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "2","MATCH","2","3","7","10","0.5","0.5","0.273226514274691","0.65","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "2","MATCH","2","7","7","10","0.5","0.5","0.206983024691358","0.6","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "2","MULTIPLE_MATCH","2","4","7","10","0.5","0.5","0.206983024691358","0.55","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "2","MATCH","2","12","7","10","0.5","0.5","0.5625","0.55","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "2","MATCH","2","13","7","10","0.5","0.5","0.278356481481482","0.55","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "2","MULTIPLE_MATCH","2","14","7","10","0.5","0.5","0.5625","0.5","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "3","CHECK_UNIQUE","9","9","5","10","0.5","0.5","0.00212330299662596","","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "3","MATCH","9","10","5","10","0.5","0.5","0.010258343648191","0.85","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "3","MULTIPLE_MATCH","9","11","5","10","0.5","0.5","0.0733506944444444","0.75","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "3","MULTIPLE_MATCH","9","14","5","10","0.5","0.5","0.101875964506173","0.55","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "3","MULTIPLE_MATCH","9","8","5","10","0.5","0.5","1","0.5","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.5, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","CHECK_UNIQUE","1","1","10","10","0.5","0.5","0.00160822601126208","","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "1","MATCH","1","8","10","10","0.5","0.5","0.1173520625","0.6","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "1","MULTIPLE_MATCH","1","6","10","10","0.5","0.5","0.2637125","0.55","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "1","MULTIPLE_MATCH","1","15","10","10","0.5","0.5","0.24276","0.55","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "1","MULTIPLE_MATCH","1","19","10","10","0.5","0.5","0.168776","0.55","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "1","MULTIPLE_MATCH","1","4","10","10","0.5","0.5","0.3215125","0.5","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MATCH","1","5","10","10","0.5","0.5","0.162425","0.5","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "1","MULTIPLE_MATCH","1","11","10","10","0.5","0.5","0.4624","0.5","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "1","MULTIPLE_MATCH","1","17","10","10","0.5","0.5","0.24276","0.5","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "1","MULTIPLE_MATCH","1","20","10","10","0.5","0.5","0.168776","0.5","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "2","CHECK_UNIQUE","2","2","6","10","0.5","0.5","0.009859926234375","","AAB","108","118","202","202","307","311","408","408","501","505","605","608","705","720","801","810","902","902","1019","1019"
  "2","MATCH","2","3","6","10","0.5","0.5","0.020841201556","0.8","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "2","MULTIPLE_MATCH","2","7","6","10","0.5","0.5","0.084227375","0.6","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "2","MULTIPLE_MATCH","2","4","6","10","0.5","0.5","0.084227375","0.55","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "2","MULTIPLE_MATCH","2","12","6","10","0.5","0.5","0.5625","0.5","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "2","MULTIPLE_MATCH","2","13","6","10","0.5","0.5","0.296625","0.5","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "3","CHECK_UNIQUE","9","9","5","10","0.5","0.5","0.000923759825021556","","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","904","920","1005","1013"
  "3","MATCH","9","10","5","10","0.5","0.5","0.00225273357900786","0.9","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "3","MULTIPLE_MATCH","9","11","5","10","0.5","0.5","0.0169092406005469","0.8","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "3","MATCH","9","14","5","10","0.5","0.5","0.09772875","0.5","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "3","MULTIPLE_MATCH","9","17","5","10","0.5","0.5","0.2926125","0.5","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "4","CHECK_UNIQUE","12","12","6","10","0.5","0.5","0.00230420071741125","","AAE","104","104","202","208","304","311","408","408","501","501","605","620","705","720","810","819","902","906","1007","1019"
  "4","MULTIPLE_MATCH","12","13","6","10","0.5","0.5","0.00230420071741125","0.9","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "4","MATCH","12","18","6","10","0.5","0.5","0.0329728802","0.65","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "4","MULTIPLE_MATCH","12","19","6","10","0.5","0.5","0.07804232","0.6","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "4","MULTIPLE_MATCH","12","2","6","10","0.5","0.5","0.2953125","0.55","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "4","MULTIPLE_MATCH","12","20","6","10","0.5","0.5","0.120328","0.55","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "5","CHECK_UNIQUE","15","15","8","10","0.5","0.5","0.00208939483785447","","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "5","MULTIPLE_MATCH","15","17","8","10","0.5","0.5","0.00231836961460565","0.95","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "5","MATCH","15","16","8","10","0.5","0.5","0.00251846699205673","0.9","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "5","MULTIPLE_MATCH","15","11","8","10","0.5","0.5","0.187272","0.6","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "5","MULTIPLE_MATCH","15","6","8","10","0.5","0.5","0.4082125","0.55","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "5","MULTIPLE_MATCH","15","19","8","10","0.5","0.5","0.1816545625","0.55","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "5","MULTIPLE_MATCH","15","1","8","10","0.5","0.5","0.24276","0.5","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "5","MULTIPLE_MATCH","15","7","8","10","0.5","0.5","0.4082125","0.5","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.5, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","16","","","10","0.5","0.5","","","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "1","CHECK_UNIQUE","1","1","10","10","0.5","0.5","0.00141601780271555","","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "1","MULTIPLE_MATCH","1","8","10","10","0.5","0.5","0.15528525390625","0.6","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "1","MULTIPLE_MATCH","1","6","10","10","0.5","0.5","0.32017578125","0.55","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "1","MULTIPLE_MATCH","1","15","10","10","0.5","0.5","0.197474718093872","0.55","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "1","MULTIPLE_MATCH","1","19","10","10","0.5","0.5","0.180098876953125","0.55","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "1","MULTIPLE_MATCH","1","4","10","10","0.5","0.5","0.32017578125","0.5","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MULTIPLE_MATCH","1","5","10","10","0.5","0.5","0.235225","0.5","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "1","MULTIPLE_MATCH","1","11","10","10","0.5","0.5","0.435806274414062","0.5","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "1","MULTIPLE_MATCH","1","17","10","10","0.5","0.5","0.197474718093872","0.5","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "1","MULTIPLE_MATCH","1","20","10","10","0.5","0.5","0.180098876953125","0.5","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "2","CHECK_UNIQUE","3","3","7","10","0.5","0.5","0.00233316215310745","","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "2","MULTIPLE_MATCH","3","2","7","10","0.5","0.5","0.196875","0.65","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "2","MULTIPLE_MATCH","3","7","7","10","0.5","0.5","0.265234375","0.55","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "2","MULTIPLE_MATCH","3","4","7","10","0.5","0.5","0.265234375","0.5","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "2","MULTIPLE_MATCH","3","8","7","10","0.5","0.5","0.2049125","0.5","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "2","MULTIPLE_MATCH","3","11","7","10","0.5","0.5","0.485","0.5","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "2","MULTIPLE_MATCH","3","12","7","10","0.5","0.5","1","0.5","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "3","CHECK_UNIQUE","5","5","7","10","0.5","0.5","0.00149664118969753","","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "3","MULTIPLE_MATCH","5","6","7","10","0.5","0.5","0.00761940277305603","0.8","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "3","MULTIPLE_MATCH","5","4","7","10","0.5","0.5","0.0120533976123047","0.75","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "3","MULTIPLE_MATCH","5","7","7","10","0.5","0.5","0.0140415869091797","0.75","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "3","MULTIPLE_MATCH","5","8","7","10","0.5","0.5","0.051694369140625","0.75","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "3","MULTIPLE_MATCH","5","1","7","10","0.5","0.5","0.235225","0.5","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "3","MULTIPLE_MATCH","5","19","7","10","0.5","0.5","0.274025","0.5","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "4","CHECK_UNIQUE","9","9","5","10","0.5","0.5","0.000888477705401718","","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "4","MATCH","9","10","5","10","0.5","0.5","0.00467914455972412","0.85","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "4","MULTIPLE_MATCH","9","11","5","10","0.5","0.5","0.0324546180664062","0.75","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "4","MATCH","9","14","5","10","0.5","0.5","0.084086875","0.55","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "4","MULTIPLE_MATCH","9","8","5","10","0.5","0.5","0.66015625","0.5","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "5","CHECK_UNIQUE","13","13","8","10","0.5","0.5","0.000514293435233108","","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "5","MULTIPLE_MATCH","13","12","8","10","0.5","0.5","0.0242347549438477","0.75","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "5","MATCH","13","18","8","10","0.5","0.5","0.0624263203125","0.65","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "5","MULTIPLE_MATCH","13","19","8","10","0.5","0.5","0.0624263203125","0.65","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "5","MULTIPLE_MATCH","13","2","8","10","0.5","0.5","0.28984375","0.55","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "5","MULTIPLE_MATCH","13","20","8","10","0.5","0.5","0.2278125","0.55","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "5","MULTIPLE_MATCH","13","15","8","10","0.5","0.5","0.228825","0.5","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "5","MULTIPLE_MATCH","13","17","8","10","0.5","0.5","0.228825","0.5","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.5, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","CHECK_UNIQUE","1","1","10","10","0.5","0.5","0.00190650665144829","","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "1","MATCH","1","8","10","10","0.5","0.5","0.1414655","0.6","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "1","MULTIPLE_MATCH","1","6","10","10","0.5","0.5","0.3179","0.55","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "1","MULTIPLE_MATCH","1","15","10","10","0.5","0.5","0.27405328125","0.55","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "1","MULTIPLE_MATCH","1","19","10","10","0.5","0.5","0.203456","0.55","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "1","MATCH","1","4","10","10","0.5","0.5","0.3215125","0.5","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MATCH","1","5","10","10","0.5","0.5","0.1958","0.5","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "1","MULTIPLE_MATCH","1","11","10","10","0.5","0.5","0.52200625","0.5","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "1","MULTIPLE_MATCH","1","17","10","10","0.5","0.5","0.27405328125","0.5","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "1","MULTIPLE_MATCH","1","20","10","10","0.5","0.5","0.203456","0.5","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "2","CHECK_UNIQUE","3","3","3","10","0.5","0.5","0.00171993140896903","","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","1019","1019"
  "2","MULTIPLE_MATCH","3","2","3","10","0.5","0.5","0.096138","0.7","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "2","MULTIPLE_MATCH","3","7","3","10","0.5","0.5","0.242525","0.5","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "3","CHECK_UNIQUE","9","9","5","10","0.5","0.5","0.00087824826278935","","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","904","920","1005","1013"
  "3","MATCH","9","10","5","10","0.5","0.5","0.00200926731495375","0.9","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "3","MULTIPLE_MATCH","9","11","5","10","0.5","0.5","0.0139363087563984","0.8","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "3","MATCH","9","14","5","10","0.5","0.5","0.080546375","0.5","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "3","MULTIPLE_MATCH","9","17","5","10","0.5","0.5","0.2926125","0.5","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "4","CHECK_UNIQUE","13","13","8","10","0.5","0.5","0.000513438462430128","","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "4","MATCH","13","12","8","10","0.5","0.5","0.0232066292","0.75","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "4","MATCH","13","18","8","10","0.5","0.5","0.07804232","0.65","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "4","MULTIPLE_MATCH","13","19","8","10","0.5","0.5","0.07804232","0.65","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "4","MULTIPLE_MATCH","13","2","8","10","0.5","0.5","0.28885","0.55","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "4","MULTIPLE_MATCH","13","20","8","10","0.5","0.5","0.2848","0.55","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "4","MULTIPLE_MATCH","13","15","8","10","0.5","0.5","0.251425","0.5","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "4","MULTIPLE_MATCH","13","17","8","10","0.5","0.5","0.251425","0.5","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "5","CHECK_UNIQUE","15","15","8","10","0.5","0.5","0.00237241571181342","","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "5","MULTIPLE_MATCH","15","17","8","10","0.5","0.5","0.00243247686907452","0.95","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "5","MATCH","15","16","8","10","0.5","0.5","0.00253307856525803","0.9","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "5","MULTIPLE_MATCH","15","11","8","10","0.5","0.5","0.21141253125","0.6","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "5","MULTIPLE_MATCH","15","6","8","10","0.5","0.5","0.4082125","0.55","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "5","MULTIPLE_MATCH","15","19","8","10","0.5","0.5","0.1816545625","0.55","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "5","MULTIPLE_MATCH","15","1","8","10","0.5","0.5","0.27405328125","0.5","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "5","MULTIPLE_MATCH","15","7","8","10","0.5","0.5","0.4082125","0.5","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.7, doPsib="missing", consensusMethod=1)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  'x' must be atomic 
    Rejected :  amUnique(amdataExample4, cutHeight=0.7, doPsib="missing", consensusMethod=1)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.7, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","CHECK_UNIQUE","2","2","18","14","0.3","0.7","0.0676589622162282","","AAB","108","118","202","202","307","311","408","408","501","505","605","608","705","720","801","810","902","902","1019","1019"
  "1","MULTIPLE_MATCH","2","3","18","14","0.3","0.7","","0.8","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "1","MULTIPLE_MATCH","2","7","18","14","0.3","0.7","","0.6","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MATCH","2","4","18","14","0.3","0.7","","0.55","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MULTIPLE_MATCH","2","12","18","14","0.3","0.7","","0.5","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "1","MULTIPLE_MATCH","2","13","18","14","0.3","0.7","","0.5","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "1","MATCH","2","6","18","14","0.3","0.7","","0.45","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "1","MULTIPLE_MATCH","2","11","18","14","0.3","0.7","","0.45","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "1","MULTIPLE_MATCH","2","1","18","14","0.3","0.7","","0.4","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "1","MATCH","2","5","18","14","0.3","0.7","","0.4","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "1","MATCH","2","8","18","14","0.3","0.7","","0.4","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "1","MULTIPLE_MATCH","2","10","18","14","0.3","0.7","","0.4","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "1","MULTIPLE_MATCH","2","15","18","14","0.3","0.7","","0.4","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "1","MULTIPLE_MATCH","2","17","18","14","0.3","0.7","","0.4","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "1","MULTIPLE_MATCH","2","9","18","14","0.3","0.7","","0.35","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "1","MULTIPLE_MATCH","2","14","18","14","0.3","0.7","","0.35","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "1","MULTIPLE_MATCH","2","19","18","14","0.3","0.7","","0.35","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "1","MULTIPLE_MATCH","2","20","18","14","0.3","0.7","","0.35","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "2","CHECK_UNIQUE","12","12","16","14","0.3","0.7",NA,"","AAE","104","104","202","208","304","311","408","408","501","501","605","620","705","720","810","819","902","906","1007","1019"
  "2","MULTIPLE_MATCH","12","13","16","14","0.3","0.7","","0.9","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "2","MATCH","12","18","16","14","0.3","0.7","","0.65","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "2","MULTIPLE_MATCH","12","19","16","14","0.3","0.7","","0.6","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "2","MULTIPLE_MATCH","12","2","16","14","0.3","0.7","","0.55","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "2","MULTIPLE_MATCH","12","20","16","14","0.3","0.7","","0.55","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "2","MULTIPLE_MATCH","12","15","16","14","0.3","0.7","","0.45","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "2","MULTIPLE_MATCH","12","17","16","14","0.3","0.7","","0.45","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "2","MULTIPLE_MATCH","12","3","16","14","0.3","0.7","","0.4","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "2","MULTIPLE_MATCH","12","10","16","14","0.3","0.7","","0.4","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "2","MULTIPLE_MATCH","12","11","16","14","0.3","0.7","","0.4","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "2","MULTIPLE_MATCH","12","14","16","14","0.3","0.7","","0.4","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "2","MATCH","12","16","16","14","0.3","0.7","","0.4","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "2","MULTIPLE_MATCH","12","1","16","14","0.3","0.7","","0.35","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "2","MULTIPLE_MATCH","12","7","16","14","0.3","0.7","","0.35","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "2","MULTIPLE_MATCH","12","9","16","14","0.3","0.7","","0.35","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.7, doPsib="missing", consensusMethod=3)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  allelematch:  amCluster:  no clusters formed.  Please set cutHeight lower and run again. 
    Rejected :  amUnique(amdataExample4, cutHeight=0.7, doPsib="missing", consensusMethod=3)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.7, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","5","","","14","0.3","0.7","","","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "","UNCLASSIFIED","16","","","14","0.3","0.7","","","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "","UNCLASSIFIED","18","","","14","0.3","0.7","","","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "","UNCLASSIFIED","19","","","14","0.3","0.7","","","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "","UNCLASSIFIED","20","","","14","0.3","0.7","","","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "1","UNIQUE","3","3","15","14","0.3","0.7","0.095367431640625","","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","1019","1019"
  "1","MATCH","3","2","15","14","0.3","0.7","","0.7","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "1","MATCH","3","7","15","14","0.3","0.7","","0.5","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MATCH","3","4","15","14","0.3","0.7","","0.45","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MATCH","3","8","15","14","0.3","0.7","","0.45","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "1","MATCH","3","11","15","14","0.3","0.7","","0.45","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "1","MATCH","3","12","15","14","0.3","0.7","","0.45","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "1","MATCH","3","13","15","14","0.3","0.7","","0.45","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "1","MATCH","3","6","15","14","0.3","0.7","","0.4","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "1","MATCH","3","10","15","14","0.3","0.7","","0.4","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "1","MATCH","3","14","15","14","0.3","0.7","","0.4","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "1","MATCH","3","1","15","14","0.3","0.7","","0.35","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "1","MATCH","3","9","15","14","0.3","0.7","","0.35","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "1","MATCH","3","15","15","14","0.3","0.7","","0.35","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "1","MATCH","3","17","15","14","0.3","0.7","","0.35","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.7, doPsib="all", consensusMethod=1)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  'x' must be atomic 
    Rejected :  amUnique(amdataExample4, cutHeight=0.7, doPsib="all", consensusMethod=1)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.7, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","CHECK_UNIQUE","2","2","18","14","0.3","0.7","0.0676589622162282","","AAB","108","118","202","202","307","311","408","408","501","505","605","608","705","720","801","810","902","902","1019","1019"
  "1","MULTIPLE_MATCH","2","3","18","14","0.3","0.7","0.0435056686401367","0.8","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "1","MULTIPLE_MATCH","2","7","18","14","0.3","0.7","0.12060546875","0.6","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MATCH","2","4","18","14","0.3","0.7","0.12060546875","0.55","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MULTIPLE_MATCH","2","12","18","14","0.3","0.7","1","0.5","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "1","MULTIPLE_MATCH","2","13","18","14","0.3","0.7","0.37109375","0.5","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "1","MATCH","2","6","18","14","0.3","0.7","0.296875","0.45","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "1","MULTIPLE_MATCH","2","11","18","14","0.3","0.7","1","0.45","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "1","MULTIPLE_MATCH","2","1","18","14","0.3","0.7","0.765625","0.4","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "1","MATCH","2","5","18","14","0.3","0.7","0.203125","0.4","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "1","MATCH","2","8","18","14","0.3","0.7","0.5","0.4","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "1","MULTIPLE_MATCH","2","10","18","14","0.3","0.7","1","0.4","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "1","MULTIPLE_MATCH","2","15","18","14","0.3","0.7","0.5","0.4","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "1","MULTIPLE_MATCH","2","17","18","14","0.3","0.7","0.5","0.4","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "1","MULTIPLE_MATCH","2","9","18","14","0.3","0.7","1","0.35","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "1","MULTIPLE_MATCH","2","14","18","14","0.3","0.7","0.765625","0.35","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "1","MULTIPLE_MATCH","2","19","18","14","0.3","0.7","0.765625","0.35","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "1","MULTIPLE_MATCH","2","20","18","14","0.3","0.7","0.765625","0.35","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "2","CHECK_UNIQUE","12","12","16","14","0.3","0.7","0.0091986358165741","","AAE","104","104","202","208","304","311","408","408","501","501","605","620","705","720","810","819","902","906","1007","1019"
  "2","MULTIPLE_MATCH","12","13","16","14","0.3","0.7","0.0091986358165741","0.9","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "2","MATCH","12","18","16","14","0.3","0.7","0.0639266967773438","0.65","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "2","MULTIPLE_MATCH","12","19","16","14","0.3","0.7","0.08349609375","0.6","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "2","MULTIPLE_MATCH","12","2","16","14","0.3","0.7","0.625","0.55","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "2","MULTIPLE_MATCH","12","20","16","14","0.3","0.7","0.21533203125","0.55","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "2","MULTIPLE_MATCH","12","15","16","14","0.3","0.7","0.296875","0.45","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "2","MULTIPLE_MATCH","12","17","16","14","0.3","0.7","0.296875","0.45","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "2","MULTIPLE_MATCH","12","3","16","14","0.3","0.7","1","0.4","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "2","MULTIPLE_MATCH","12","10","16","14","0.3","0.7","0.5","0.4","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "2","MULTIPLE_MATCH","12","11","16","14","0.3","0.7","0.5","0.4","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "2","MULTIPLE_MATCH","12","14","16","14","0.3","0.7","0.5","0.4","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "2","MATCH","12","16","16","14","0.3","0.7","0.296875","0.4","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "2","MULTIPLE_MATCH","12","1","16","14","0.3","0.7","0.5625","0.35","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "2","MULTIPLE_MATCH","12","7","16","14","0.3","0.7","0.59375","0.35","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "2","MULTIPLE_MATCH","12","9","16","14","0.3","0.7","0.5","0.35","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.7, doPsib="all", consensusMethod=3)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  allelematch:  amCluster:  no clusters formed.  Please set cutHeight lower and run again. 
    Rejected :  amUnique(amdataExample4, cutHeight=0.7, doPsib="all", consensusMethod=3)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.7, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","5","","","14","0.3","0.7","","","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "","UNCLASSIFIED","16","","","14","0.3","0.7","","","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "","UNCLASSIFIED","18","","","14","0.3","0.7","","","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "","UNCLASSIFIED","19","","","14","0.3","0.7","","","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "","UNCLASSIFIED","20","","","14","0.3","0.7","","","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "1","UNIQUE","3","3","15","14","0.3","0.7","0.095367431640625","","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","1019","1019"
  "1","MATCH","3","2","15","14","0.3","0.7","0.625","0.7","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "1","MATCH","3","7","15","14","0.3","0.7","0.390625","0.5","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MATCH","3","4","15","14","0.3","0.7","0.390625","0.45","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MATCH","3","8","15","14","0.3","0.7","0.625","0.45","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "1","MATCH","3","11","15","14","0.3","0.7","0.625","0.45","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "1","MATCH","3","12","15","14","0.3","0.7","1","0.45","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "1","MATCH","3","13","15","14","0.3","0.7","0.625","0.45","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "1","MATCH","3","6","15","14","0.3","0.7","0.390625","0.4","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "1","MATCH","3","10","15","14","0.3","0.7","0.625","0.4","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "1","MATCH","3","14","15","14","0.3","0.7","0.625","0.4","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "1","MATCH","3","1","15","14","0.3","0.7","1","0.35","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "1","MATCH","3","9","15","14","0.3","0.7","0.625","0.35","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "1","MATCH","3","15","15","14","0.3","0.7","0.625","0.35","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "1","MATCH","3","17","15","14","0.3","0.7","0.625","0.35","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.9, doPsib="missing", consensusMethod=1)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  'x' must be atomic 
    Rejected :  amUnique(amdataExample4, cutHeight=0.9, doPsib="missing", consensusMethod=1)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.9, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","CHECK_UNIQUE","2","2","20","18","0.1","0.9","0.0676589622162282","","AAB","108","118","202","202","307","311","408","408","501","505","605","608","705","720","801","810","902","902","1019","1019"
  "1","MULTIPLE_MATCH","2","3","20","18","0.1","0.9","","0.8","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "1","MULTIPLE_MATCH","2","7","20","18","0.1","0.9","","0.6","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MULTIPLE_MATCH","2","4","20","18","0.1","0.9","","0.55","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MULTIPLE_MATCH","2","12","20","18","0.1","0.9","","0.5","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "1","MULTIPLE_MATCH","2","13","20","18","0.1","0.9","","0.5","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "1","MULTIPLE_MATCH","2","6","20","18","0.1","0.9","","0.45","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "1","MULTIPLE_MATCH","2","11","20","18","0.1","0.9","","0.45","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "1","MULTIPLE_MATCH","2","1","20","18","0.1","0.9","","0.4","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "1","MULTIPLE_MATCH","2","5","20","18","0.1","0.9","","0.4","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "1","MULTIPLE_MATCH","2","8","20","18","0.1","0.9","","0.4","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "1","MULTIPLE_MATCH","2","10","20","18","0.1","0.9","","0.4","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "1","MULTIPLE_MATCH","2","15","20","18","0.1","0.9","","0.4","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "1","MULTIPLE_MATCH","2","17","20","18","0.1","0.9","","0.4","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "1","MULTIPLE_MATCH","2","9","20","18","0.1","0.9","","0.35","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "1","MULTIPLE_MATCH","2","14","20","18","0.1","0.9","","0.35","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "1","MULTIPLE_MATCH","2","19","20","18","0.1","0.9","","0.35","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "1","MULTIPLE_MATCH","2","20","20","18","0.1","0.9","","0.35","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "1","MULTIPLE_MATCH","2","16","20","18","0.1","0.9","","0.3","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "1","MULTIPLE_MATCH","2","18","20","18","0.1","0.9","","0.3","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "2","CHECK_UNIQUE","12","12","20","18","0.1","0.9",NA,"","AAE","104","104","202","208","304","311","408","408","501","501","605","620","705","720","810","819","902","906","1007","1019"
  "2","MULTIPLE_MATCH","12","13","20","18","0.1","0.9","","0.9","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "2","MULTIPLE_MATCH","12","18","20","18","0.1","0.9","","0.65","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "2","MULTIPLE_MATCH","12","19","20","18","0.1","0.9","","0.6","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "2","MULTIPLE_MATCH","12","2","20","18","0.1","0.9","","0.55","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "2","MULTIPLE_MATCH","12","20","20","18","0.1","0.9","","0.55","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "2","MULTIPLE_MATCH","12","15","20","18","0.1","0.9","","0.45","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "2","MULTIPLE_MATCH","12","17","20","18","0.1","0.9","","0.45","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "2","MULTIPLE_MATCH","12","3","20","18","0.1","0.9","","0.4","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "2","MULTIPLE_MATCH","12","10","20","18","0.1","0.9","","0.4","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "2","MULTIPLE_MATCH","12","11","20","18","0.1","0.9","","0.4","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "2","MULTIPLE_MATCH","12","14","20","18","0.1","0.9","","0.4","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "2","MULTIPLE_MATCH","12","16","20","18","0.1","0.9","","0.4","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "2","MULTIPLE_MATCH","12","1","20","18","0.1","0.9","","0.35","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "2","MULTIPLE_MATCH","12","7","20","18","0.1","0.9","","0.35","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "2","MULTIPLE_MATCH","12","9","20","18","0.1","0.9","","0.35","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "2","MULTIPLE_MATCH","12","4","20","18","0.1","0.9","","0.3","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "2","MULTIPLE_MATCH","12","5","20","18","0.1","0.9","","0.3","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "2","MULTIPLE_MATCH","12","6","20","18","0.1","0.9","","0.3","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "2","MULTIPLE_MATCH","12","8","20","18","0.1","0.9","","0.25","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.9, doPsib="missing", consensusMethod=3)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  allelematch:  amCluster:  no clusters formed.  Please set cutHeight lower and run again. 
    Rejected :  amUnique(amdataExample4, cutHeight=0.9, doPsib="missing", consensusMethod=3)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.9, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","3","3","20","18","0.1","0.9","0.095367431640625","","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","1019","1019"
  "1","MATCH","3","2","20","18","0.1","0.9","","0.7","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "1","MATCH","3","7","20","18","0.1","0.9","","0.5","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MATCH","3","4","20","18","0.1","0.9","","0.45","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MATCH","3","8","20","18","0.1","0.9","","0.45","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "1","MATCH","3","11","20","18","0.1","0.9","","0.45","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "1","MATCH","3","12","20","18","0.1","0.9","","0.45","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "1","MATCH","3","13","20","18","0.1","0.9","","0.45","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "1","MATCH","3","6","20","18","0.1","0.9","","0.4","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "1","MATCH","3","10","20","18","0.1","0.9","","0.4","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "1","MATCH","3","14","20","18","0.1","0.9","","0.4","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "1","MATCH","3","1","20","18","0.1","0.9","","0.35","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "1","MATCH","3","9","20","18","0.1","0.9","","0.35","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "1","MATCH","3","15","20","18","0.1","0.9","","0.35","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "1","MATCH","3","17","20","18","0.1","0.9","","0.35","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "1","MATCH","3","5","20","18","0.1","0.9","","0.3","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "1","MATCH","3","18","20","18","0.1","0.9","","0.3","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "1","MATCH","3","19","20","18","0.1","0.9","","0.3","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "1","MATCH","3","20","20","18","0.1","0.9","","0.3","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "1","MATCH","3","16","20","18","0.1","0.9","","0.25","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.9, doPsib="all", consensusMethod=1)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  'x' must be atomic 
    Rejected :  amUnique(amdataExample4, cutHeight=0.9, doPsib="all", consensusMethod=1)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.9, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","CHECK_UNIQUE","2","2","20","18","0.1","0.9","0.0676589622162282","","AAB","108","118","202","202","307","311","408","408","501","505","605","608","705","720","801","810","902","902","1019","1019"
  "1","MULTIPLE_MATCH","2","3","20","18","0.1","0.9","0.0435056686401367","0.8","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "1","MULTIPLE_MATCH","2","7","20","18","0.1","0.9","0.12060546875","0.6","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MULTIPLE_MATCH","2","4","20","18","0.1","0.9","0.12060546875","0.55","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MULTIPLE_MATCH","2","12","20","18","0.1","0.9","1","0.5","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "1","MULTIPLE_MATCH","2","13","20","18","0.1","0.9","0.37109375","0.5","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "1","MULTIPLE_MATCH","2","6","20","18","0.1","0.9","0.296875","0.45","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "1","MULTIPLE_MATCH","2","11","20","18","0.1","0.9","1","0.45","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "1","MULTIPLE_MATCH","2","1","20","18","0.1","0.9","0.765625","0.4","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "1","MULTIPLE_MATCH","2","5","20","18","0.1","0.9","0.203125","0.4","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "1","MULTIPLE_MATCH","2","8","20","18","0.1","0.9","0.5","0.4","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "1","MULTIPLE_MATCH","2","10","20","18","0.1","0.9","1","0.4","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "1","MULTIPLE_MATCH","2","15","20","18","0.1","0.9","0.5","0.4","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "1","MULTIPLE_MATCH","2","17","20","18","0.1","0.9","0.5","0.4","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "1","MULTIPLE_MATCH","2","9","20","18","0.1","0.9","1","0.35","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "1","MULTIPLE_MATCH","2","14","20","18","0.1","0.9","0.765625","0.35","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "1","MULTIPLE_MATCH","2","19","20","18","0.1","0.9","0.765625","0.35","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "1","MULTIPLE_MATCH","2","20","20","18","0.1","0.9","0.765625","0.35","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "1","MULTIPLE_MATCH","2","16","20","18","0.1","0.9","0.5","0.3","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "1","MULTIPLE_MATCH","2","18","20","18","0.1","0.9","0.765625","0.3","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "2","CHECK_UNIQUE","12","12","20","18","0.1","0.9","0.0091986358165741","","AAE","104","104","202","208","304","311","408","408","501","501","605","620","705","720","810","819","902","906","1007","1019"
  "2","MULTIPLE_MATCH","12","13","20","18","0.1","0.9","0.0091986358165741","0.9","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "2","MULTIPLE_MATCH","12","18","20","18","0.1","0.9","0.0639266967773438","0.65","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "2","MULTIPLE_MATCH","12","19","20","18","0.1","0.9","0.08349609375","0.6","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "2","MULTIPLE_MATCH","12","2","20","18","0.1","0.9","0.625","0.55","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "2","MULTIPLE_MATCH","12","20","20","18","0.1","0.9","0.21533203125","0.55","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "2","MULTIPLE_MATCH","12","15","20","18","0.1","0.9","0.296875","0.45","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "2","MULTIPLE_MATCH","12","17","20","18","0.1","0.9","0.296875","0.45","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "2","MULTIPLE_MATCH","12","3","20","18","0.1","0.9","1","0.4","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "2","MULTIPLE_MATCH","12","10","20","18","0.1","0.9","0.5","0.4","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "2","MULTIPLE_MATCH","12","11","20","18","0.1","0.9","0.5","0.4","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "2","MULTIPLE_MATCH","12","14","20","18","0.1","0.9","0.5","0.4","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "2","MULTIPLE_MATCH","12","16","20","18","0.1","0.9","0.296875","0.4","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "2","MULTIPLE_MATCH","12","1","20","18","0.1","0.9","0.5625","0.35","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "2","MULTIPLE_MATCH","12","7","20","18","0.1","0.9","0.59375","0.35","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "2","MULTIPLE_MATCH","12","9","20","18","0.1","0.9","0.5","0.35","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "2","MULTIPLE_MATCH","12","4","20","18","0.1","0.9","1","0.3","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "2","MULTIPLE_MATCH","12","5","20","18","0.1","0.9","0.59375","0.3","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "2","MULTIPLE_MATCH","12","6","20","18","0.1","0.9","0.59375","0.3","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "2","MULTIPLE_MATCH","12","8","20","18","0.1","0.9","1","0.25","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.9, doPsib="all", consensusMethod=3)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  allelematch:  amCluster:  no clusters formed.  Please set cutHeight lower and run again. 
    Rejected :  amUnique(amdataExample4, cutHeight=0.9, doPsib="all", consensusMethod=3)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.9, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","3","3","20","18","0.1","0.9","0.095367431640625","","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","1019","1019"
  "1","MATCH","3","2","20","18","0.1","0.9","0.625","0.7","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "1","MATCH","3","7","20","18","0.1","0.9","0.390625","0.5","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MATCH","3","4","20","18","0.1","0.9","0.390625","0.45","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MATCH","3","8","20","18","0.1","0.9","0.625","0.45","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "1","MATCH","3","11","20","18","0.1","0.9","0.625","0.45","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "1","MATCH","3","12","20","18","0.1","0.9","1","0.45","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "1","MATCH","3","13","20","18","0.1","0.9","0.625","0.45","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "1","MATCH","3","6","20","18","0.1","0.9","0.390625","0.4","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "1","MATCH","3","10","20","18","0.1","0.9","0.625","0.4","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "1","MATCH","3","14","20","18","0.1","0.9","0.625","0.4","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "1","MATCH","3","1","20","18","0.1","0.9","1","0.35","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "1","MATCH","3","9","20","18","0.1","0.9","0.625","0.35","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "1","MATCH","3","15","20","18","0.1","0.9","0.625","0.35","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "1","MATCH","3","17","20","18","0.1","0.9","0.625","0.35","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "1","MATCH","3","5","20","18","0.1","0.9","0.625","0.3","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "1","MATCH","3","18","20","18","0.1","0.9","1","0.3","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "1","MATCH","3","19","20","18","0.1","0.9","1","0.3","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "1","MATCH","3","20","20","18","0.1","0.9","1","0.3","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "1","MATCH","3","16","20","18","0.1","0.9","0.625","0.25","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.95, doPsib="missing", consensusMethod=1)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  'x' must be atomic 
    Rejected :  amUnique(amdataExample4, cutHeight=0.95, doPsib="missing", consensusMethod=1)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.95, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","CHECK_UNIQUE","2","2","20","19","0.05","0.95","0.0676589622162282","","AAB","108","118","202","202","307","311","408","408","501","505","605","608","705","720","801","810","902","902","1019","1019"
  "1","MULTIPLE_MATCH","2","3","20","19","0.05","0.95","","0.8","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "1","MULTIPLE_MATCH","2","7","20","19","0.05","0.95","","0.6","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MULTIPLE_MATCH","2","4","20","19","0.05","0.95","","0.55","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MULTIPLE_MATCH","2","12","20","19","0.05","0.95","","0.5","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "1","MULTIPLE_MATCH","2","13","20","19","0.05","0.95","","0.5","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "1","MULTIPLE_MATCH","2","6","20","19","0.05","0.95","","0.45","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "1","MULTIPLE_MATCH","2","11","20","19","0.05","0.95","","0.45","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "1","MULTIPLE_MATCH","2","1","20","19","0.05","0.95","","0.4","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "1","MULTIPLE_MATCH","2","5","20","19","0.05","0.95","","0.4","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "1","MULTIPLE_MATCH","2","8","20","19","0.05","0.95","","0.4","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "1","MULTIPLE_MATCH","2","10","20","19","0.05","0.95","","0.4","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "1","MULTIPLE_MATCH","2","15","20","19","0.05","0.95","","0.4","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "1","MULTIPLE_MATCH","2","17","20","19","0.05","0.95","","0.4","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "1","MULTIPLE_MATCH","2","9","20","19","0.05","0.95","","0.35","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "1","MULTIPLE_MATCH","2","14","20","19","0.05","0.95","","0.35","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "1","MULTIPLE_MATCH","2","19","20","19","0.05","0.95","","0.35","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "1","MULTIPLE_MATCH","2","20","20","19","0.05","0.95","","0.35","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "1","MULTIPLE_MATCH","2","16","20","19","0.05","0.95","","0.3","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "1","MULTIPLE_MATCH","2","18","20","19","0.05","0.95","","0.3","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "2","CHECK_UNIQUE","12","12","20","19","0.05","0.95",NA,"","AAE","104","104","202","208","304","311","408","408","501","501","605","620","705","720","810","819","902","906","1007","1019"
  "2","MULTIPLE_MATCH","12","13","20","19","0.05","0.95","","0.9","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "2","MULTIPLE_MATCH","12","18","20","19","0.05","0.95","","0.65","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "2","MULTIPLE_MATCH","12","19","20","19","0.05","0.95","","0.6","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "2","MULTIPLE_MATCH","12","2","20","19","0.05","0.95","","0.55","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "2","MULTIPLE_MATCH","12","20","20","19","0.05","0.95","","0.55","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "2","MULTIPLE_MATCH","12","15","20","19","0.05","0.95","","0.45","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "2","MULTIPLE_MATCH","12","17","20","19","0.05","0.95","","0.45","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "2","MULTIPLE_MATCH","12","3","20","19","0.05","0.95","","0.4","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "2","MULTIPLE_MATCH","12","10","20","19","0.05","0.95","","0.4","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "2","MULTIPLE_MATCH","12","11","20","19","0.05","0.95","","0.4","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "2","MULTIPLE_MATCH","12","14","20","19","0.05","0.95","","0.4","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "2","MULTIPLE_MATCH","12","16","20","19","0.05","0.95","","0.4","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "2","MULTIPLE_MATCH","12","1","20","19","0.05","0.95","","0.35","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "2","MULTIPLE_MATCH","12","7","20","19","0.05","0.95","","0.35","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "2","MULTIPLE_MATCH","12","9","20","19","0.05","0.95","","0.35","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "2","MULTIPLE_MATCH","12","4","20","19","0.05","0.95","","0.3","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "2","MULTIPLE_MATCH","12","5","20","19","0.05","0.95","","0.3","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "2","MULTIPLE_MATCH","12","6","20","19","0.05","0.95","","0.3","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "2","MULTIPLE_MATCH","12","8","20","19","0.05","0.95","","0.25","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.95, doPsib="missing", consensusMethod=3)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  allelematch:  amCluster:  no clusters formed.  Please set cutHeight lower and run again. 
    Rejected :  amUnique(amdataExample4, cutHeight=0.95, doPsib="missing", consensusMethod=3)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.95, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","3","3","20","19","0.05","0.95","0.095367431640625","","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","1019","1019"
  "1","MATCH","3","2","20","19","0.05","0.95","","0.7","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "1","MATCH","3","7","20","19","0.05","0.95","","0.5","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MATCH","3","4","20","19","0.05","0.95","","0.45","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MATCH","3","8","20","19","0.05","0.95","","0.45","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "1","MATCH","3","11","20","19","0.05","0.95","","0.45","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "1","MATCH","3","12","20","19","0.05","0.95","","0.45","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "1","MATCH","3","13","20","19","0.05","0.95","","0.45","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "1","MATCH","3","6","20","19","0.05","0.95","","0.4","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "1","MATCH","3","10","20","19","0.05","0.95","","0.4","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "1","MATCH","3","14","20","19","0.05","0.95","","0.4","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "1","MATCH","3","1","20","19","0.05","0.95","","0.35","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "1","MATCH","3","9","20","19","0.05","0.95","","0.35","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "1","MATCH","3","15","20","19","0.05","0.95","","0.35","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "1","MATCH","3","17","20","19","0.05","0.95","","0.35","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "1","MATCH","3","5","20","19","0.05","0.95","","0.3","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "1","MATCH","3","18","20","19","0.05","0.95","","0.3","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "1","MATCH","3","19","20","19","0.05","0.95","","0.3","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "1","MATCH","3","20","20","19","0.05","0.95","","0.3","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "1","MATCH","3","16","20","19","0.05","0.95","","0.25","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.95, doPsib="all", consensusMethod=1)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  'x' must be atomic 
    Rejected :  amUnique(amdataExample4, cutHeight=0.95, doPsib="all", consensusMethod=1)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.95, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","CHECK_UNIQUE","2","2","20","19","0.05","0.95","0.0676589622162282","","AAB","108","118","202","202","307","311","408","408","501","505","605","608","705","720","801","810","902","902","1019","1019"
  "1","MULTIPLE_MATCH","2","3","20","19","0.05","0.95","0.0435056686401367","0.8","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "1","MULTIPLE_MATCH","2","7","20","19","0.05","0.95","0.12060546875","0.6","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MULTIPLE_MATCH","2","4","20","19","0.05","0.95","0.12060546875","0.55","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MULTIPLE_MATCH","2","12","20","19","0.05","0.95","1","0.5","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "1","MULTIPLE_MATCH","2","13","20","19","0.05","0.95","0.37109375","0.5","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "1","MULTIPLE_MATCH","2","6","20","19","0.05","0.95","0.296875","0.45","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "1","MULTIPLE_MATCH","2","11","20","19","0.05","0.95","1","0.45","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "1","MULTIPLE_MATCH","2","1","20","19","0.05","0.95","0.765625","0.4","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "1","MULTIPLE_MATCH","2","5","20","19","0.05","0.95","0.203125","0.4","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "1","MULTIPLE_MATCH","2","8","20","19","0.05","0.95","0.5","0.4","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "1","MULTIPLE_MATCH","2","10","20","19","0.05","0.95","1","0.4","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "1","MULTIPLE_MATCH","2","15","20","19","0.05","0.95","0.5","0.4","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "1","MULTIPLE_MATCH","2","17","20","19","0.05","0.95","0.5","0.4","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "1","MULTIPLE_MATCH","2","9","20","19","0.05","0.95","1","0.35","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "1","MULTIPLE_MATCH","2","14","20","19","0.05","0.95","0.765625","0.35","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "1","MULTIPLE_MATCH","2","19","20","19","0.05","0.95","0.765625","0.35","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "1","MULTIPLE_MATCH","2","20","20","19","0.05","0.95","0.765625","0.35","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "1","MULTIPLE_MATCH","2","16","20","19","0.05","0.95","0.5","0.3","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "1","MULTIPLE_MATCH","2","18","20","19","0.05","0.95","0.765625","0.3","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "2","CHECK_UNIQUE","12","12","20","19","0.05","0.95","0.0091986358165741","","AAE","104","104","202","208","304","311","408","408","501","501","605","620","705","720","810","819","902","906","1007","1019"
  "2","MULTIPLE_MATCH","12","13","20","19","0.05","0.95","0.0091986358165741","0.9","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "2","MULTIPLE_MATCH","12","18","20","19","0.05","0.95","0.0639266967773438","0.65","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "2","MULTIPLE_MATCH","12","19","20","19","0.05","0.95","0.08349609375","0.6","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "2","MULTIPLE_MATCH","12","2","20","19","0.05","0.95","0.625","0.55","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "2","MULTIPLE_MATCH","12","20","20","19","0.05","0.95","0.21533203125","0.55","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "2","MULTIPLE_MATCH","12","15","20","19","0.05","0.95","0.296875","0.45","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "2","MULTIPLE_MATCH","12","17","20","19","0.05","0.95","0.296875","0.45","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "2","MULTIPLE_MATCH","12","3","20","19","0.05","0.95","1","0.4","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "2","MULTIPLE_MATCH","12","10","20","19","0.05","0.95","0.5","0.4","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "2","MULTIPLE_MATCH","12","11","20","19","0.05","0.95","0.5","0.4","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "2","MULTIPLE_MATCH","12","14","20","19","0.05","0.95","0.5","0.4","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "2","MULTIPLE_MATCH","12","16","20","19","0.05","0.95","0.296875","0.4","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "2","MULTIPLE_MATCH","12","1","20","19","0.05","0.95","0.5625","0.35","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "2","MULTIPLE_MATCH","12","7","20","19","0.05","0.95","0.59375","0.35","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "2","MULTIPLE_MATCH","12","9","20","19","0.05","0.95","0.5","0.35","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "2","MULTIPLE_MATCH","12","4","20","19","0.05","0.95","1","0.3","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "2","MULTIPLE_MATCH","12","5","20","19","0.05","0.95","0.59375","0.3","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "2","MULTIPLE_MATCH","12","6","20","19","0.05","0.95","0.59375","0.3","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "2","MULTIPLE_MATCH","12","8","20","19","0.05","0.95","1","0.25","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.95, doPsib="all", consensusMethod=3)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  allelematch:  amCluster:  no clusters formed.  Please set cutHeight lower and run again. 
    Rejected :  amUnique(amdataExample4, cutHeight=0.95, doPsib="all", consensusMethod=3)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.95, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","3","3","20","19","0.05","0.95","0.095367431640625","","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","1019","1019"
  "1","MATCH","3","2","20","19","0.05","0.95","0.625","0.7","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "1","MATCH","3","7","20","19","0.05","0.95","0.390625","0.5","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MATCH","3","4","20","19","0.05","0.95","0.390625","0.45","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MATCH","3","8","20","19","0.05","0.95","0.625","0.45","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "1","MATCH","3","11","20","19","0.05","0.95","0.625","0.45","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "1","MATCH","3","12","20","19","0.05","0.95","1","0.45","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "1","MATCH","3","13","20","19","0.05","0.95","0.625","0.45","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "1","MATCH","3","6","20","19","0.05","0.95","0.390625","0.4","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "1","MATCH","3","10","20","19","0.05","0.95","0.625","0.4","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "1","MATCH","3","14","20","19","0.05","0.95","0.625","0.4","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "1","MATCH","3","1","20","19","0.05","0.95","1","0.35","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "1","MATCH","3","9","20","19","0.05","0.95","0.625","0.35","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "1","MATCH","3","15","20","19","0.05","0.95","0.625","0.35","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "1","MATCH","3","17","20","19","0.05","0.95","0.625","0.35","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "1","MATCH","3","5","20","19","0.05","0.95","0.625","0.3","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "1","MATCH","3","18","20","19","0.05","0.95","1","0.3","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "1","MATCH","3","19","20","19","0.05","0.95","1","0.3","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "1","MATCH","3","20","20","19","0.05","0.95","1","0.3","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "1","MATCH","3","16","20","19","0.05","0.95","0.625","0.25","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.99, doPsib="missing", consensusMethod=1)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  'x' must be atomic 
    Rejected :  amUnique(amdataExample4, cutHeight=0.99, doPsib="missing", consensusMethod=1)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.99, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","CHECK_UNIQUE","2","2","20","19.8","0.01","0.99","0.0676589622162282","","AAB","108","118","202","202","307","311","408","408","501","505","605","608","705","720","801","810","902","902","1019","1019"
  "1","MULTIPLE_MATCH","2","3","20","19.8","0.01","0.99","","0.8","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "1","MULTIPLE_MATCH","2","7","20","19.8","0.01","0.99","","0.6","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MULTIPLE_MATCH","2","4","20","19.8","0.01","0.99","","0.55","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MULTIPLE_MATCH","2","12","20","19.8","0.01","0.99","","0.5","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "1","MULTIPLE_MATCH","2","13","20","19.8","0.01","0.99","","0.5","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "1","MULTIPLE_MATCH","2","6","20","19.8","0.01","0.99","","0.45","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "1","MULTIPLE_MATCH","2","11","20","19.8","0.01","0.99","","0.45","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "1","MULTIPLE_MATCH","2","1","20","19.8","0.01","0.99","","0.4","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "1","MULTIPLE_MATCH","2","5","20","19.8","0.01","0.99","","0.4","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "1","MULTIPLE_MATCH","2","8","20","19.8","0.01","0.99","","0.4","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "1","MULTIPLE_MATCH","2","10","20","19.8","0.01","0.99","","0.4","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "1","MULTIPLE_MATCH","2","15","20","19.8","0.01","0.99","","0.4","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "1","MULTIPLE_MATCH","2","17","20","19.8","0.01","0.99","","0.4","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "1","MULTIPLE_MATCH","2","9","20","19.8","0.01","0.99","","0.35","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "1","MULTIPLE_MATCH","2","14","20","19.8","0.01","0.99","","0.35","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "1","MULTIPLE_MATCH","2","19","20","19.8","0.01","0.99","","0.35","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "1","MULTIPLE_MATCH","2","20","20","19.8","0.01","0.99","","0.35","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "1","MULTIPLE_MATCH","2","16","20","19.8","0.01","0.99","","0.3","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "1","MULTIPLE_MATCH","2","18","20","19.8","0.01","0.99","","0.3","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "2","CHECK_UNIQUE","12","12","20","19.8","0.01","0.99",NA,"","AAE","104","104","202","208","304","311","408","408","501","501","605","620","705","720","810","819","902","906","1007","1019"
  "2","MULTIPLE_MATCH","12","13","20","19.8","0.01","0.99","","0.9","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "2","MULTIPLE_MATCH","12","18","20","19.8","0.01","0.99","","0.65","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "2","MULTIPLE_MATCH","12","19","20","19.8","0.01","0.99","","0.6","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "2","MULTIPLE_MATCH","12","2","20","19.8","0.01","0.99","","0.55","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "2","MULTIPLE_MATCH","12","20","20","19.8","0.01","0.99","","0.55","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "2","MULTIPLE_MATCH","12","15","20","19.8","0.01","0.99","","0.45","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "2","MULTIPLE_MATCH","12","17","20","19.8","0.01","0.99","","0.45","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "2","MULTIPLE_MATCH","12","3","20","19.8","0.01","0.99","","0.4","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "2","MULTIPLE_MATCH","12","10","20","19.8","0.01","0.99","","0.4","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "2","MULTIPLE_MATCH","12","11","20","19.8","0.01","0.99","","0.4","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "2","MULTIPLE_MATCH","12","14","20","19.8","0.01","0.99","","0.4","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "2","MULTIPLE_MATCH","12","16","20","19.8","0.01","0.99","","0.4","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "2","MULTIPLE_MATCH","12","1","20","19.8","0.01","0.99","","0.35","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "2","MULTIPLE_MATCH","12","7","20","19.8","0.01","0.99","","0.35","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "2","MULTIPLE_MATCH","12","9","20","19.8","0.01","0.99","","0.35","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "2","MULTIPLE_MATCH","12","4","20","19.8","0.01","0.99","","0.3","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "2","MULTIPLE_MATCH","12","5","20","19.8","0.01","0.99","","0.3","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "2","MULTIPLE_MATCH","12","6","20","19.8","0.01","0.99","","0.3","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "2","MULTIPLE_MATCH","12","8","20","19.8","0.01","0.99","","0.25","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.99, doPsib="missing", consensusMethod=3)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  allelematch:  amCluster:  no clusters formed.  Please set cutHeight lower and run again. 
    Rejected :  amUnique(amdataExample4, cutHeight=0.99, doPsib="missing", consensusMethod=3)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.99, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","3","3","20","19.8","0.01","0.99","0.095367431640625","","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","1019","1019"
  "1","MATCH","3","2","20","19.8","0.01","0.99","","0.7","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "1","MATCH","3","7","20","19.8","0.01","0.99","","0.5","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MATCH","3","4","20","19.8","0.01","0.99","","0.45","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MATCH","3","8","20","19.8","0.01","0.99","","0.45","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "1","MATCH","3","11","20","19.8","0.01","0.99","","0.45","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "1","MATCH","3","12","20","19.8","0.01","0.99","","0.45","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "1","MATCH","3","13","20","19.8","0.01","0.99","","0.45","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "1","MATCH","3","6","20","19.8","0.01","0.99","","0.4","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "1","MATCH","3","10","20","19.8","0.01","0.99","","0.4","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "1","MATCH","3","14","20","19.8","0.01","0.99","","0.4","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "1","MATCH","3","1","20","19.8","0.01","0.99","","0.35","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "1","MATCH","3","9","20","19.8","0.01","0.99","","0.35","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "1","MATCH","3","15","20","19.8","0.01","0.99","","0.35","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "1","MATCH","3","17","20","19.8","0.01","0.99","","0.35","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "1","MATCH","3","5","20","19.8","0.01","0.99","","0.3","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "1","MATCH","3","18","20","19.8","0.01","0.99","","0.3","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "1","MATCH","3","19","20","19.8","0.01","0.99","","0.3","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "1","MATCH","3","20","20","19.8","0.01","0.99","","0.3","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "1","MATCH","3","16","20","19.8","0.01","0.99","","0.25","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.99, doPsib="all", consensusMethod=1)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  'x' must be atomic 
    Rejected :  amUnique(amdataExample4, cutHeight=0.99, doPsib="all", consensusMethod=1)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.99, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","CHECK_UNIQUE","2","2","20","19.8","0.01","0.99","0.0676589622162282","","AAB","108","118","202","202","307","311","408","408","501","505","605","608","705","720","801","810","902","902","1019","1019"
  "1","MULTIPLE_MATCH","2","3","20","19.8","0.01","0.99","0.0435056686401367","0.8","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "1","MULTIPLE_MATCH","2","7","20","19.8","0.01","0.99","0.12060546875","0.6","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MULTIPLE_MATCH","2","4","20","19.8","0.01","0.99","0.12060546875","0.55","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MULTIPLE_MATCH","2","12","20","19.8","0.01","0.99","1","0.5","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "1","MULTIPLE_MATCH","2","13","20","19.8","0.01","0.99","0.37109375","0.5","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "1","MULTIPLE_MATCH","2","6","20","19.8","0.01","0.99","0.296875","0.45","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "1","MULTIPLE_MATCH","2","11","20","19.8","0.01","0.99","1","0.45","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "1","MULTIPLE_MATCH","2","1","20","19.8","0.01","0.99","0.765625","0.4","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "1","MULTIPLE_MATCH","2","5","20","19.8","0.01","0.99","0.203125","0.4","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "1","MULTIPLE_MATCH","2","8","20","19.8","0.01","0.99","0.5","0.4","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "1","MULTIPLE_MATCH","2","10","20","19.8","0.01","0.99","1","0.4","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "1","MULTIPLE_MATCH","2","15","20","19.8","0.01","0.99","0.5","0.4","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "1","MULTIPLE_MATCH","2","17","20","19.8","0.01","0.99","0.5","0.4","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "1","MULTIPLE_MATCH","2","9","20","19.8","0.01","0.99","1","0.35","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "1","MULTIPLE_MATCH","2","14","20","19.8","0.01","0.99","0.765625","0.35","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "1","MULTIPLE_MATCH","2","19","20","19.8","0.01","0.99","0.765625","0.35","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "1","MULTIPLE_MATCH","2","20","20","19.8","0.01","0.99","0.765625","0.35","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "1","MULTIPLE_MATCH","2","16","20","19.8","0.01","0.99","0.5","0.3","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "1","MULTIPLE_MATCH","2","18","20","19.8","0.01","0.99","0.765625","0.3","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "2","CHECK_UNIQUE","12","12","20","19.8","0.01","0.99","0.0091986358165741","","AAE","104","104","202","208","304","311","408","408","501","501","605","620","705","720","810","819","902","906","1007","1019"
  "2","MULTIPLE_MATCH","12","13","20","19.8","0.01","0.99","0.0091986358165741","0.9","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "2","MULTIPLE_MATCH","12","18","20","19.8","0.01","0.99","0.0639266967773438","0.65","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "2","MULTIPLE_MATCH","12","19","20","19.8","0.01","0.99","0.08349609375","0.6","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "2","MULTIPLE_MATCH","12","2","20","19.8","0.01","0.99","0.625","0.55","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "2","MULTIPLE_MATCH","12","20","20","19.8","0.01","0.99","0.21533203125","0.55","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "2","MULTIPLE_MATCH","12","15","20","19.8","0.01","0.99","0.296875","0.45","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "2","MULTIPLE_MATCH","12","17","20","19.8","0.01","0.99","0.296875","0.45","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "2","MULTIPLE_MATCH","12","3","20","19.8","0.01","0.99","1","0.4","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "2","MULTIPLE_MATCH","12","10","20","19.8","0.01","0.99","0.5","0.4","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "2","MULTIPLE_MATCH","12","11","20","19.8","0.01","0.99","0.5","0.4","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "2","MULTIPLE_MATCH","12","14","20","19.8","0.01","0.99","0.5","0.4","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "2","MULTIPLE_MATCH","12","16","20","19.8","0.01","0.99","0.296875","0.4","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "2","MULTIPLE_MATCH","12","1","20","19.8","0.01","0.99","0.5625","0.35","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "2","MULTIPLE_MATCH","12","7","20","19.8","0.01","0.99","0.59375","0.35","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "2","MULTIPLE_MATCH","12","9","20","19.8","0.01","0.99","0.5","0.35","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "2","MULTIPLE_MATCH","12","4","20","19.8","0.01","0.99","1","0.3","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "2","MULTIPLE_MATCH","12","5","20","19.8","0.01","0.99","0.59375","0.3","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "2","MULTIPLE_MATCH","12","6","20","19.8","0.01","0.99","0.59375","0.3","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "2","MULTIPLE_MATCH","12","8","20","19.8","0.01","0.99","1","0.25","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.99, doPsib="all", consensusMethod=3)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  allelematch:  amCluster:  no clusters formed.  Please set cutHeight lower and run again. 
    Rejected :  amUnique(amdataExample4, cutHeight=0.99, doPsib="all", consensusMethod=3)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=0.99, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","3","3","20","19.8","0.01","0.99","0.095367431640625","","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","1019","1019"
  "1","MATCH","3","2","20","19.8","0.01","0.99","0.625","0.7","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "1","MATCH","3","7","20","19.8","0.01","0.99","0.390625","0.5","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MATCH","3","4","20","19.8","0.01","0.99","0.390625","0.45","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MATCH","3","8","20","19.8","0.01","0.99","0.625","0.45","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "1","MATCH","3","11","20","19.8","0.01","0.99","0.625","0.45","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "1","MATCH","3","12","20","19.8","0.01","0.99","1","0.45","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "1","MATCH","3","13","20","19.8","0.01","0.99","0.625","0.45","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "1","MATCH","3","6","20","19.8","0.01","0.99","0.390625","0.4","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "1","MATCH","3","10","20","19.8","0.01","0.99","0.625","0.4","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "1","MATCH","3","14","20","19.8","0.01","0.99","0.625","0.4","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "1","MATCH","3","1","20","19.8","0.01","0.99","1","0.35","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "1","MATCH","3","9","20","19.8","0.01","0.99","0.625","0.35","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "1","MATCH","3","15","20","19.8","0.01","0.99","0.625","0.35","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "1","MATCH","3","17","20","19.8","0.01","0.99","0.625","0.35","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "1","MATCH","3","5","20","19.8","0.01","0.99","0.625","0.3","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "1","MATCH","3","18","20","19.8","0.01","0.99","1","0.3","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "1","MATCH","3","19","20","19.8","0.01","0.99","1","0.3","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "1","MATCH","3","20","20","19.8","0.01","0.99","1","0.3","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "1","MATCH","3","16","20","19.8","0.01","0.99","0.625","0.25","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=1, doPsib="missing", consensusMethod=1)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  'x' must be atomic 
    Rejected :  amUnique(amdataExample4, cutHeight=1, doPsib="missing", consensusMethod=1)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=1, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","CHECK_UNIQUE","2","2","20","20","0","1","0.0676589622162282","","AAB","108","118","202","202","307","311","408","408","501","505","605","608","705","720","801","810","902","902","1019","1019"
  "1","MULTIPLE_MATCH","2","3","20","20","0","1","","0.8","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "1","MULTIPLE_MATCH","2","7","20","20","0","1","","0.6","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MULTIPLE_MATCH","2","4","20","20","0","1","","0.55","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MULTIPLE_MATCH","2","12","20","20","0","1","","0.5","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "1","MULTIPLE_MATCH","2","13","20","20","0","1","","0.5","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "1","MULTIPLE_MATCH","2","6","20","20","0","1","","0.45","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "1","MULTIPLE_MATCH","2","11","20","20","0","1","","0.45","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "1","MULTIPLE_MATCH","2","1","20","20","0","1","","0.4","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "1","MULTIPLE_MATCH","2","5","20","20","0","1","","0.4","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "1","MULTIPLE_MATCH","2","8","20","20","0","1","","0.4","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "1","MULTIPLE_MATCH","2","10","20","20","0","1","","0.4","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "1","MULTIPLE_MATCH","2","15","20","20","0","1","","0.4","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "1","MULTIPLE_MATCH","2","17","20","20","0","1","","0.4","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "1","MULTIPLE_MATCH","2","9","20","20","0","1","","0.35","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "1","MULTIPLE_MATCH","2","14","20","20","0","1","","0.35","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "1","MULTIPLE_MATCH","2","19","20","20","0","1","","0.35","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "1","MULTIPLE_MATCH","2","20","20","20","0","1","","0.35","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "1","MULTIPLE_MATCH","2","16","20","20","0","1","","0.3","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "1","MULTIPLE_MATCH","2","18","20","20","0","1","","0.3","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "2","CHECK_UNIQUE","12","12","20","20","0","1",NA,"","AAE","104","104","202","208","304","311","408","408","501","501","605","620","705","720","810","819","902","906","1007","1019"
  "2","MULTIPLE_MATCH","12","13","20","20","0","1","","0.9","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "2","MULTIPLE_MATCH","12","18","20","20","0","1","","0.65","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "2","MULTIPLE_MATCH","12","19","20","20","0","1","","0.6","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "2","MULTIPLE_MATCH","12","2","20","20","0","1","","0.55","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "2","MULTIPLE_MATCH","12","20","20","20","0","1","","0.55","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "2","MULTIPLE_MATCH","12","15","20","20","0","1","","0.45","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "2","MULTIPLE_MATCH","12","17","20","20","0","1","","0.45","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "2","MULTIPLE_MATCH","12","3","20","20","0","1","","0.4","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "2","MULTIPLE_MATCH","12","10","20","20","0","1","","0.4","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "2","MULTIPLE_MATCH","12","11","20","20","0","1","","0.4","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "2","MULTIPLE_MATCH","12","14","20","20","0","1","","0.4","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "2","MULTIPLE_MATCH","12","16","20","20","0","1","","0.4","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "2","MULTIPLE_MATCH","12","1","20","20","0","1","","0.35","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "2","MULTIPLE_MATCH","12","7","20","20","0","1","","0.35","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "2","MULTIPLE_MATCH","12","9","20","20","0","1","","0.35","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "2","MULTIPLE_MATCH","12","4","20","20","0","1","","0.3","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "2","MULTIPLE_MATCH","12","5","20","20","0","1","","0.3","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "2","MULTIPLE_MATCH","12","6","20","20","0","1","","0.3","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "2","MULTIPLE_MATCH","12","8","20","20","0","1","","0.25","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=1, doPsib="missing", consensusMethod=3)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  allelematch:  amCluster:  no clusters formed.  Please set cutHeight lower and run again. 
    Rejected :  amUnique(amdataExample4, cutHeight=1, doPsib="missing", consensusMethod=3)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=1, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","3","3","20","20","0","1","0.095367431640625","","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","1019","1019"
  "1","MATCH","3","2","20","20","0","1","","0.7","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "1","MATCH","3","7","20","20","0","1","","0.5","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MATCH","3","4","20","20","0","1","","0.45","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MATCH","3","8","20","20","0","1","","0.45","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "1","MATCH","3","11","20","20","0","1","","0.45","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "1","MATCH","3","12","20","20","0","1","","0.45","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "1","MATCH","3","13","20","20","0","1","","0.45","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "1","MATCH","3","6","20","20","0","1","","0.4","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "1","MATCH","3","10","20","20","0","1","","0.4","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "1","MATCH","3","14","20","20","0","1","","0.4","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "1","MATCH","3","1","20","20","0","1","","0.35","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "1","MATCH","3","9","20","20","0","1","","0.35","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "1","MATCH","3","15","20","20","0","1","","0.35","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "1","MATCH","3","17","20","20","0","1","","0.35","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "1","MATCH","3","5","20","20","0","1","","0.3","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "1","MATCH","3","18","20","20","0","1","","0.3","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "1","MATCH","3","19","20","20","0","1","","0.3","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "1","MATCH","3","20","20","20","0","1","","0.3","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "1","MATCH","3","16","20","20","0","1","","0.25","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=1, doPsib="all", consensusMethod=1)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  'x' must be atomic 
    Rejected :  amUnique(amdataExample4, cutHeight=1, doPsib="all", consensusMethod=1)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=1, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","CHECK_UNIQUE","2","2","20","20","0","1","0.0676589622162282","","AAB","108","118","202","202","307","311","408","408","501","505","605","608","705","720","801","810","902","902","1019","1019"
  "1","MULTIPLE_MATCH","2","3","20","20","0","1","0.0435056686401367","0.8","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "1","MULTIPLE_MATCH","2","7","20","20","0","1","0.12060546875","0.6","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MULTIPLE_MATCH","2","4","20","20","0","1","0.12060546875","0.55","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MULTIPLE_MATCH","2","12","20","20","0","1","1","0.5","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "1","MULTIPLE_MATCH","2","13","20","20","0","1","0.37109375","0.5","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "1","MULTIPLE_MATCH","2","6","20","20","0","1","0.296875","0.45","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "1","MULTIPLE_MATCH","2","11","20","20","0","1","1","0.45","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "1","MULTIPLE_MATCH","2","1","20","20","0","1","0.765625","0.4","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "1","MULTIPLE_MATCH","2","5","20","20","0","1","0.203125","0.4","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "1","MULTIPLE_MATCH","2","8","20","20","0","1","0.5","0.4","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "1","MULTIPLE_MATCH","2","10","20","20","0","1","1","0.4","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "1","MULTIPLE_MATCH","2","15","20","20","0","1","0.5","0.4","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "1","MULTIPLE_MATCH","2","17","20","20","0","1","0.5","0.4","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "1","MULTIPLE_MATCH","2","9","20","20","0","1","1","0.35","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "1","MULTIPLE_MATCH","2","14","20","20","0","1","0.765625","0.35","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "1","MULTIPLE_MATCH","2","19","20","20","0","1","0.765625","0.35","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "1","MULTIPLE_MATCH","2","20","20","20","0","1","0.765625","0.35","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "1","MULTIPLE_MATCH","2","16","20","20","0","1","0.5","0.3","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "1","MULTIPLE_MATCH","2","18","20","20","0","1","0.765625","0.3","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "2","CHECK_UNIQUE","12","12","20","20","0","1","0.0091986358165741","","AAE","104","104","202","208","304","311","408","408","501","501","605","620","705","720","810","819","902","906","1007","1019"
  "2","MULTIPLE_MATCH","12","13","20","20","0","1","0.0091986358165741","0.9","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "2","MULTIPLE_MATCH","12","18","20","20","0","1","0.0639266967773438","0.65","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "2","MULTIPLE_MATCH","12","19","20","20","0","1","0.08349609375","0.6","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "2","MULTIPLE_MATCH","12","2","20","20","0","1","0.625","0.55","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "2","MULTIPLE_MATCH","12","20","20","20","0","1","0.21533203125","0.55","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "2","MULTIPLE_MATCH","12","15","20","20","0","1","0.296875","0.45","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "2","MULTIPLE_MATCH","12","17","20","20","0","1","0.296875","0.45","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "2","MULTIPLE_MATCH","12","3","20","20","0","1","1","0.4","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","-99","-99"
  "2","MULTIPLE_MATCH","12","10","20","20","0","1","0.5","0.4","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "2","MULTIPLE_MATCH","12","11","20","20","0","1","0.5","0.4","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "2","MULTIPLE_MATCH","12","14","20","20","0","1","0.5","0.4","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "2","MULTIPLE_MATCH","12","16","20","20","0","1","0.296875","0.4","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"
  "2","MULTIPLE_MATCH","12","1","20","20","0","1","0.5625","0.35","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "2","MULTIPLE_MATCH","12","7","20","20","0","1","0.59375","0.35","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "2","MULTIPLE_MATCH","12","9","20","20","0","1","0.5","0.35","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "2","MULTIPLE_MATCH","12","4","20","20","0","1","1","0.3","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "2","MULTIPLE_MATCH","12","5","20","20","0","1","0.59375","0.3","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "2","MULTIPLE_MATCH","12","6","20","20","0","1","0.59375","0.3","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "2","MULTIPLE_MATCH","12","8","20","20","0","1","1","0.25","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=1, doPsib="all", consensusMethod=3)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  allelematch:  amCluster:  no clusters formed.  Please set cutHeight lower and run again. 
    Rejected :  amUnique(amdataExample4, cutHeight=1, doPsib="all", consensusMethod=3)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample4, cutHeight=1, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","metaData","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","3","3","20","20","0","1","0.095367431640625","","AAB","108","108","202","202","307","311","408","413","501","505","605","608","705","705","801","810","902","902","1019","1019"
  "1","MATCH","3","2","20","20","0","1","0.625","0.7","AAB","108","118","202","202","-99","-99","408","408","501","505","-99","-99","705","720","-99","-99","902","902","1019","1019"
  "1","MATCH","3","7","20","20","0","1","0.390625","0.5","AAC","108","118","202","208","-99","-99","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MATCH","3","4","20","20","0","1","0.390625","0.45","AAC","108","118","-99","-99","304","307","-99","-99","501","505","608","608","704","720","801","810","909","920","-99","-99"
  "1","MATCH","3","8","20","20","0","1","0.625","0.45","AAC","108","108","-99","-99","304","307","413","418","-99","-99","608","608","-99","-99","801","810","-99","-99","1005","1007"
  "1","MATCH","3","11","20","20","0","1","0.625","0.45","AAD","104","118","-99","-99","304","311","408","413","505","505","608","608","-99","-99","801","819","904","920","-99","-99"
  "1","MATCH","3","12","20","20","0","1","1","0.45","AAE","104","104","202","208","304","311","408","408","501","501","605","620","-99","-99","-99","-99","902","906","-99","-99"
  "1","MATCH","3","13","20","20","0","1","0.625","0.45","AAE","104","104","202","208","304","311","408","418","501","505","605","620","705","720","810","819","902","906","1007","1019"
  "1","MATCH","3","6","20","20","0","1","0.390625","0.4","AAC","-99","-99","202","208","-99","-99","413","418","501","505","608","608","704","720","801","810","909","920","1005","1007"
  "1","MATCH","3","10","20","20","0","1","0.625","0.4","AAD","104","118","208","212","304","311","408","413","-99","-99","608","608","705","717","801","819","904","920","-99","-99"
  "1","MATCH","3","14","20","20","0","1","0.625","0.4","AAF","104","118","208","212","-99","-99","408","413","505","505","620","620","702","705","810","819","-99","-99","1019","1019"
  "1","MATCH","3","1","20","20","0","1","1","0.35","AAA","104","104","202","202","304","307","413","418","505","505","608","608","720","720","801","813","902","904","1005","1019"
  "1","MATCH","3","9","20","20","0","1","0.625","0.35","AAD","104","118","208","212","304","311","408","413","505","519","608","608","705","717","801","819","-99","-99","1005","1013"
  "1","MATCH","3","15","20","20","0","1","0.625","0.35","AAG","104","111","202","208","307","311","413","420","505","505","608","608","702","720","810","819","-99","-99","1005","1019"
  "1","MATCH","3","17","20","20","0","1","0.625","0.35","AAG","104","111","202","208","307","311","-99","-99","505","505","608","608","702","720","810","819","904","920","1005","1019"
  "1","MATCH","3","5","20","20","0","1","0.625","0.3","AAC","108","118","202","208","304","307","413","418","-99","-99","-99","-99","704","720","801","810","909","920","1005","1007"
  "1","MATCH","3","18","20","20","0","1","1","0.3","AAH","104","104","202","208","304","311","413","418","501","501","-99","-99","717","717","810","819","902","902","1007","1007"
  "1","MATCH","3","19","20","20","0","1","1","0.3","AAH","104","104","202","208","304","311","413","418","-99","-99","608","608","717","720","810","819","902","902","1007","1007"
  "1","MATCH","3","20","20","20","0","1","1","0.3","AAH","104","104","-99","-99","-99","-99","413","418","501","501","608","608","717","720","810","819","902","902","1007","1007"
  "1","MATCH","3","16","20","20","0","1","0.625","0.25","AAG","104","111","202","208","307","311","413","420","-99","-99","608","608","702","720","810","819","904","920","1005","1005"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0, doPsib="missing", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1001.ON.CA","1001.ON.CA","1","0","1","1e-05","0.00131808345978478","","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "2","UNIQUE","1002.ON.CA","1002.ON.CA","1","0","1","1e-05","0.00410489004453238","","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "3","UNIQUE","1003.ON.CA","1003.ON.CA","2","0","1","1e-05","0.000749708839980945","","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "3","MATCH","1003.ON.CA","1005.ON.CA","2","0","1","1e-05","0.000749708839980945","1","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "4","UNIQUE","1004.ON.CA","1004.ON.CA","1","0","1","1e-05","0.000547435332727722","","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "5","UNIQUE","1006.ON.CA","1006.ON.CA","2","0","1","1e-05","0.00123998120698213","","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "5","MATCH","1006.ON.CA","1007.ON.CA","2","0","1","1e-05","0.00123998120698213","1","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "6","UNIQUE","1008.ON.CA","1008.ON.CA","2","0","1","1e-05","0.00306698613871686","","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "6","MATCH","1008.ON.CA","1009.ON.CA","2","0","1","1e-05","0.00306698613871686","1","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "7","UNIQUE","1010.ON.CA","1010.ON.CA","1","0","1","1e-05","0.0013726774927697","","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "8","UNIQUE","1011.ON.CA","1011.ON.CA","2","0","1","1e-05","0.00199065910266615","","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "8","MATCH","1011.ON.CA","1012.ON.CA","2","0","1","1e-05","0.00199065910266615","1","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "9","UNIQUE","1013.ON.CA","1013.ON.CA","1","0","1","1e-05","0.00106447732638176","","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "10","UNIQUE","1014.ON.CA","1014.ON.CA","1","0","1","1e-05","0.000189709886365061","","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"
  "11","UNIQUE","1015.ON.CA","1015.ON.CA","1","0","1","1e-05","0.00305577349200876","","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "12","UNIQUE","1016.ON.CA","1016.ON.CA","1","0","1","1e-05","0.00157098153054483","","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "13","UNIQUE","1017.ON.CA","1017.ON.CA","1","0","1","1e-05","0.00152456631045129","","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "14","UNIQUE","1018.ON.CA","1018.ON.CA","1","0","1","1e-05","0.00154533572761724","","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "15","UNIQUE","1019.ON.CA","1019.ON.CA","1","0","1","1e-05","0.00247710910454597","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "16","UNIQUE","1020.ON.CA","1020.ON.CA","1","0","1","1e-05","0.00160243565959588","","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1001.ON.CA","1001.ON.CA","1","0","1","1e-05","0.00131808345978478","","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "2","UNIQUE","1002.ON.CA","1002.ON.CA","1","0","1","1e-05","0.00410489004453238","","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "3","UNIQUE","1003.ON.CA","1003.ON.CA","2","0","1","1e-05","0.000749708839980945","","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "3","MATCH","1003.ON.CA","1005.ON.CA","2","0","1","1e-05","0.000749708839980945","1","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "4","UNIQUE","1004.ON.CA","1004.ON.CA","1","0","1","1e-05","0.000547435332727722","","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "5","UNIQUE","1006.ON.CA","1006.ON.CA","2","0","1","1e-05","0.00123998120698213","","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "5","MATCH","1006.ON.CA","1007.ON.CA","2","0","1","1e-05","0.00123998120698213","1","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "6","UNIQUE","1008.ON.CA","1008.ON.CA","2","0","1","1e-05","0.00306698613871686","","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "6","MATCH","1008.ON.CA","1009.ON.CA","2","0","1","1e-05","0.00306698613871686","1","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "7","UNIQUE","1010.ON.CA","1010.ON.CA","1","0","1","1e-05","0.0013726774927697","","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "8","UNIQUE","1011.ON.CA","1011.ON.CA","2","0","1","1e-05","0.00199065910266615","","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "8","MATCH","1011.ON.CA","1012.ON.CA","2","0","1","1e-05","0.00199065910266615","1","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "9","UNIQUE","1013.ON.CA","1013.ON.CA","1","0","1","1e-05","0.00106447732638176","","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "10","UNIQUE","1014.ON.CA","1014.ON.CA","1","0","1","1e-05","0.000189709886365061","","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"
  "11","UNIQUE","1015.ON.CA","1015.ON.CA","1","0","1","1e-05","0.00305577349200876","","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "12","UNIQUE","1016.ON.CA","1016.ON.CA","1","0","1","1e-05","0.00157098153054483","","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "13","UNIQUE","1017.ON.CA","1017.ON.CA","1","0","1","1e-05","0.00152456631045129","","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "14","UNIQUE","1018.ON.CA","1018.ON.CA","1","0","1","1e-05","0.00154533572761724","","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "15","UNIQUE","1019.ON.CA","1019.ON.CA","1","0","1","1e-05","0.00247710910454597","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "16","UNIQUE","1020.ON.CA","1020.ON.CA","1","0","1","1e-05","0.00160243565959588","","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1001.ON.CA","1001.ON.CA","1","0","1","1e-05","0.00131808345978478","","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "2","UNIQUE","1002.ON.CA","1002.ON.CA","1","0","1","1e-05","0.00410489004453238","","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "3","UNIQUE","1003.ON.CA","1003.ON.CA","2","0","1","1e-05","0.000749708839980945","","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "3","MATCH","1003.ON.CA","1005.ON.CA","2","0","1","1e-05","0.000749708839980945","1","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "4","UNIQUE","1004.ON.CA","1004.ON.CA","1","0","1","1e-05","0.000547435332727722","","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "5","UNIQUE","1006.ON.CA","1006.ON.CA","2","0","1","1e-05","0.00123998120698213","","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "5","MATCH","1006.ON.CA","1007.ON.CA","2","0","1","1e-05","0.00123998120698213","1","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "6","UNIQUE","1008.ON.CA","1008.ON.CA","2","0","1","1e-05","0.00306698613871686","","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "6","MATCH","1008.ON.CA","1009.ON.CA","2","0","1","1e-05","0.00306698613871686","1","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "7","UNIQUE","1010.ON.CA","1010.ON.CA","1","0","1","1e-05","0.0013726774927697","","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "8","UNIQUE","1011.ON.CA","1011.ON.CA","2","0","1","1e-05","0.00199065910266615","","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "8","MATCH","1011.ON.CA","1012.ON.CA","2","0","1","1e-05","0.00199065910266615","1","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "9","UNIQUE","1013.ON.CA","1013.ON.CA","1","0","1","1e-05","0.00106447732638176","","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "10","UNIQUE","1014.ON.CA","1014.ON.CA","1","0","1","1e-05","0.000189709886365061","","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"
  "11","UNIQUE","1015.ON.CA","1015.ON.CA","1","0","1","1e-05","0.00305577349200876","","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "12","UNIQUE","1016.ON.CA","1016.ON.CA","1","0","1","1e-05","0.00157098153054483","","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "13","UNIQUE","1017.ON.CA","1017.ON.CA","1","0","1","1e-05","0.00152456631045129","","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "14","UNIQUE","1018.ON.CA","1018.ON.CA","1","0","1","1e-05","0.00154533572761724","","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "15","UNIQUE","1019.ON.CA","1019.ON.CA","1","0","1","1e-05","0.00247710910454597","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "16","UNIQUE","1020.ON.CA","1020.ON.CA","1","0","1","1e-05","0.00160243565959588","","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1001.ON.CA","1001.ON.CA","1","0","1","1e-05","0.00131808345978478","","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "2","UNIQUE","1002.ON.CA","1002.ON.CA","1","0","1","1e-05","0.00410489004453238","","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "3","UNIQUE","1003.ON.CA","1003.ON.CA","2","0","1","1e-05","0.000749708839980945","","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "3","MATCH","1003.ON.CA","1005.ON.CA","2","0","1","1e-05","0.000749708839980945","1","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "4","UNIQUE","1004.ON.CA","1004.ON.CA","1","0","1","1e-05","0.000547435332727722","","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "5","UNIQUE","1006.ON.CA","1006.ON.CA","2","0","1","1e-05","0.00123998120698213","","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "5","MATCH","1006.ON.CA","1007.ON.CA","2","0","1","1e-05","0.00123998120698213","1","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "6","UNIQUE","1008.ON.CA","1008.ON.CA","2","0","1","1e-05","0.00306698613871686","","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "6","MATCH","1008.ON.CA","1009.ON.CA","2","0","1","1e-05","0.00306698613871686","1","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "7","UNIQUE","1010.ON.CA","1010.ON.CA","1","0","1","1e-05","0.0013726774927697","","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "8","UNIQUE","1011.ON.CA","1011.ON.CA","2","0","1","1e-05","0.00199065910266615","","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "8","MATCH","1011.ON.CA","1012.ON.CA","2","0","1","1e-05","0.00199065910266615","1","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "9","UNIQUE","1013.ON.CA","1013.ON.CA","1","0","1","1e-05","0.00106447732638176","","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "10","UNIQUE","1014.ON.CA","1014.ON.CA","1","0","1","1e-05","0.000189709886365061","","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"
  "11","UNIQUE","1015.ON.CA","1015.ON.CA","1","0","1","1e-05","0.00305577349200876","","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "12","UNIQUE","1016.ON.CA","1016.ON.CA","1","0","1","1e-05","0.00157098153054483","","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "13","UNIQUE","1017.ON.CA","1017.ON.CA","1","0","1","1e-05","0.00152456631045129","","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "14","UNIQUE","1018.ON.CA","1018.ON.CA","1","0","1","1e-05","0.00154533572761724","","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "15","UNIQUE","1019.ON.CA","1019.ON.CA","1","0","1","1e-05","0.00247710910454597","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "16","UNIQUE","1020.ON.CA","1020.ON.CA","1","0","1","1e-05","0.00160243565959588","","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0, doPsib="all", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1001.ON.CA","1001.ON.CA","1","0","1","1e-05","0.00131808345978478","","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "2","UNIQUE","1002.ON.CA","1002.ON.CA","1","0","1","1e-05","0.00410489004453238","","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "3","UNIQUE","1003.ON.CA","1003.ON.CA","2","0","1","1e-05","0.000749708839980945","","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "3","MATCH","1003.ON.CA","1005.ON.CA","2","0","1","1e-05","0.000749708839980945","1","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "4","UNIQUE","1004.ON.CA","1004.ON.CA","1","0","1","1e-05","0.000547435332727722","","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "5","UNIQUE","1006.ON.CA","1006.ON.CA","2","0","1","1e-05","0.00123998120698213","","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "5","MATCH","1006.ON.CA","1007.ON.CA","2","0","1","1e-05","0.00123998120698213","1","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "6","UNIQUE","1008.ON.CA","1008.ON.CA","2","0","1","1e-05","0.00306698613871686","","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "6","MATCH","1008.ON.CA","1009.ON.CA","2","0","1","1e-05","0.00306698613871686","1","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "7","UNIQUE","1010.ON.CA","1010.ON.CA","1","0","1","1e-05","0.0013726774927697","","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "8","UNIQUE","1011.ON.CA","1011.ON.CA","2","0","1","1e-05","0.00199065910266615","","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "8","MATCH","1011.ON.CA","1012.ON.CA","2","0","1","1e-05","0.00199065910266615","1","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "9","UNIQUE","1013.ON.CA","1013.ON.CA","1","0","1","1e-05","0.00106447732638176","","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "10","UNIQUE","1014.ON.CA","1014.ON.CA","1","0","1","1e-05","0.000189709886365061","","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"
  "11","UNIQUE","1015.ON.CA","1015.ON.CA","1","0","1","1e-05","0.00305577349200876","","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "12","UNIQUE","1016.ON.CA","1016.ON.CA","1","0","1","1e-05","0.00157098153054483","","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "13","UNIQUE","1017.ON.CA","1017.ON.CA","1","0","1","1e-05","0.00152456631045129","","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "14","UNIQUE","1018.ON.CA","1018.ON.CA","1","0","1","1e-05","0.00154533572761724","","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "15","UNIQUE","1019.ON.CA","1019.ON.CA","1","0","1","1e-05","0.00247710910454597","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "16","UNIQUE","1020.ON.CA","1020.ON.CA","1","0","1","1e-05","0.00160243565959588","","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1001.ON.CA","1001.ON.CA","1","0","1","1e-05","0.00131808345978478","","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "2","UNIQUE","1002.ON.CA","1002.ON.CA","1","0","1","1e-05","0.00410489004453238","","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "3","UNIQUE","1003.ON.CA","1003.ON.CA","2","0","1","1e-05","0.000749708839980945","","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "3","MATCH","1003.ON.CA","1005.ON.CA","2","0","1","1e-05","0.000749708839980945","1","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "4","UNIQUE","1004.ON.CA","1004.ON.CA","1","0","1","1e-05","0.000547435332727722","","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "5","UNIQUE","1006.ON.CA","1006.ON.CA","2","0","1","1e-05","0.00123998120698213","","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "5","MATCH","1006.ON.CA","1007.ON.CA","2","0","1","1e-05","0.00123998120698213","1","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "6","UNIQUE","1008.ON.CA","1008.ON.CA","2","0","1","1e-05","0.00306698613871686","","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "6","MATCH","1008.ON.CA","1009.ON.CA","2","0","1","1e-05","0.00306698613871686","1","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "7","UNIQUE","1010.ON.CA","1010.ON.CA","1","0","1","1e-05","0.0013726774927697","","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "8","UNIQUE","1011.ON.CA","1011.ON.CA","2","0","1","1e-05","0.00199065910266615","","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "8","MATCH","1011.ON.CA","1012.ON.CA","2","0","1","1e-05","0.00199065910266615","1","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "9","UNIQUE","1013.ON.CA","1013.ON.CA","1","0","1","1e-05","0.00106447732638176","","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "10","UNIQUE","1014.ON.CA","1014.ON.CA","1","0","1","1e-05","0.000189709886365061","","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"
  "11","UNIQUE","1015.ON.CA","1015.ON.CA","1","0","1","1e-05","0.00305577349200876","","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "12","UNIQUE","1016.ON.CA","1016.ON.CA","1","0","1","1e-05","0.00157098153054483","","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "13","UNIQUE","1017.ON.CA","1017.ON.CA","1","0","1","1e-05","0.00152456631045129","","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "14","UNIQUE","1018.ON.CA","1018.ON.CA","1","0","1","1e-05","0.00154533572761724","","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "15","UNIQUE","1019.ON.CA","1019.ON.CA","1","0","1","1e-05","0.00247710910454597","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "16","UNIQUE","1020.ON.CA","1020.ON.CA","1","0","1","1e-05","0.00160243565959588","","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1001.ON.CA","1001.ON.CA","1","0","1","1e-05","0.00131808345978478","","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "2","UNIQUE","1002.ON.CA","1002.ON.CA","1","0","1","1e-05","0.00410489004453238","","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "3","UNIQUE","1003.ON.CA","1003.ON.CA","2","0","1","1e-05","0.000749708839980945","","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "3","MATCH","1003.ON.CA","1005.ON.CA","2","0","1","1e-05","0.000749708839980945","1","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "4","UNIQUE","1004.ON.CA","1004.ON.CA","1","0","1","1e-05","0.000547435332727722","","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "5","UNIQUE","1006.ON.CA","1006.ON.CA","2","0","1","1e-05","0.00123998120698213","","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "5","MATCH","1006.ON.CA","1007.ON.CA","2","0","1","1e-05","0.00123998120698213","1","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "6","UNIQUE","1008.ON.CA","1008.ON.CA","2","0","1","1e-05","0.00306698613871686","","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "6","MATCH","1008.ON.CA","1009.ON.CA","2","0","1","1e-05","0.00306698613871686","1","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "7","UNIQUE","1010.ON.CA","1010.ON.CA","1","0","1","1e-05","0.0013726774927697","","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "8","UNIQUE","1011.ON.CA","1011.ON.CA","2","0","1","1e-05","0.00199065910266615","","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "8","MATCH","1011.ON.CA","1012.ON.CA","2","0","1","1e-05","0.00199065910266615","1","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "9","UNIQUE","1013.ON.CA","1013.ON.CA","1","0","1","1e-05","0.00106447732638176","","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "10","UNIQUE","1014.ON.CA","1014.ON.CA","1","0","1","1e-05","0.000189709886365061","","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"
  "11","UNIQUE","1015.ON.CA","1015.ON.CA","1","0","1","1e-05","0.00305577349200876","","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "12","UNIQUE","1016.ON.CA","1016.ON.CA","1","0","1","1e-05","0.00157098153054483","","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "13","UNIQUE","1017.ON.CA","1017.ON.CA","1","0","1","1e-05","0.00152456631045129","","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "14","UNIQUE","1018.ON.CA","1018.ON.CA","1","0","1","1e-05","0.00154533572761724","","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "15","UNIQUE","1019.ON.CA","1019.ON.CA","1","0","1","1e-05","0.00247710910454597","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "16","UNIQUE","1020.ON.CA","1020.ON.CA","1","0","1","1e-05","0.00160243565959588","","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1001.ON.CA","1001.ON.CA","1","0","1","1e-05","0.00131808345978478","","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "2","UNIQUE","1002.ON.CA","1002.ON.CA","1","0","1","1e-05","0.00410489004453238","","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "3","UNIQUE","1003.ON.CA","1003.ON.CA","2","0","1","1e-05","0.000749708839980945","","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "3","MATCH","1003.ON.CA","1005.ON.CA","2","0","1","1e-05","0.000749708839980945","1","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "4","UNIQUE","1004.ON.CA","1004.ON.CA","1","0","1","1e-05","0.000547435332727722","","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "5","UNIQUE","1006.ON.CA","1006.ON.CA","2","0","1","1e-05","0.00123998120698213","","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "5","MATCH","1006.ON.CA","1007.ON.CA","2","0","1","1e-05","0.00123998120698213","1","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "6","UNIQUE","1008.ON.CA","1008.ON.CA","2","0","1","1e-05","0.00306698613871686","","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "6","MATCH","1008.ON.CA","1009.ON.CA","2","0","1","1e-05","0.00306698613871686","1","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "7","UNIQUE","1010.ON.CA","1010.ON.CA","1","0","1","1e-05","0.0013726774927697","","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "8","UNIQUE","1011.ON.CA","1011.ON.CA","2","0","1","1e-05","0.00199065910266615","","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "8","MATCH","1011.ON.CA","1012.ON.CA","2","0","1","1e-05","0.00199065910266615","1","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "9","UNIQUE","1013.ON.CA","1013.ON.CA","1","0","1","1e-05","0.00106447732638176","","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "10","UNIQUE","1014.ON.CA","1014.ON.CA","1","0","1","1e-05","0.000189709886365061","","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"
  "11","UNIQUE","1015.ON.CA","1015.ON.CA","1","0","1","1e-05","0.00305577349200876","","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "12","UNIQUE","1016.ON.CA","1016.ON.CA","1","0","1","1e-05","0.00157098153054483","","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "13","UNIQUE","1017.ON.CA","1017.ON.CA","1","0","1","1e-05","0.00152456631045129","","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "14","UNIQUE","1018.ON.CA","1018.ON.CA","1","0","1","1e-05","0.00154533572761724","","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "15","UNIQUE","1019.ON.CA","1019.ON.CA","1","0","1","1e-05","0.00247710910454597","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "16","UNIQUE","1020.ON.CA","1020.ON.CA","1","0","1","1e-05","0.00160243565959588","","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.3, doPsib="missing", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1001.ON.CA","1001.ON.CA","1","6","0.7","0.3","0.00131808345978478","","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "2","CHECK_UNIQUE","1002.ON.CA","1002.ON.CA","2","6","0.7","0.3","0.00410489004453238","","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "2","MULTIPLE_MATCH","1002.ON.CA","1010.ON.CA","2","6","0.7","0.3","","0.7","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "3","CHECK_UNIQUE","1003.ON.CA","1003.ON.CA","4","6","0.7","0.3","0.000749708839980945","","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "3","MULTIPLE_MATCH","1003.ON.CA","1005.ON.CA","4","6","0.7","0.3","0.000749708839980945","1","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "3","MULTIPLE_MATCH","1003.ON.CA","1008.ON.CA","4","6","0.7","0.3","","0.7","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "3","MULTIPLE_MATCH","1003.ON.CA","1009.ON.CA","4","6","0.7","0.3","","0.7","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "4","UNIQUE","1004.ON.CA","1004.ON.CA","1","6","0.7","0.3","0.000547435332727722","","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "5","UNIQUE","1006.ON.CA","1006.ON.CA","2","6","0.7","0.3","0.00123998120698213","","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "5","MATCH","1006.ON.CA","1007.ON.CA","2","6","0.7","0.3","0.00123998120698213","1","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "6","CHECK_UNIQUE","1008.ON.CA","1008.ON.CA","4","6","0.7","0.3","0.00306698613871686","","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "6","MULTIPLE_MATCH","1008.ON.CA","1009.ON.CA","4","6","0.7","0.3","0.00306698613871686","1","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "6","MULTIPLE_MATCH","1008.ON.CA","1003.ON.CA","4","6","0.7","0.3","","0.7","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "6","MULTIPLE_MATCH","1008.ON.CA","1005.ON.CA","4","6","0.7","0.3","","0.7","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "7","CHECK_UNIQUE","1010.ON.CA","1010.ON.CA","2","6","0.7","0.3","0.0013726774927697","","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "7","MULTIPLE_MATCH","1010.ON.CA","1002.ON.CA","2","6","0.7","0.3","","0.7","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "8","UNIQUE","1011.ON.CA","1011.ON.CA","2","6","0.7","0.3","0.00199065910266615","","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "8","MATCH","1011.ON.CA","1012.ON.CA","2","6","0.7","0.3","0.00199065910266615","1","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "9","UNIQUE","1013.ON.CA","1013.ON.CA","1","6","0.7","0.3","0.00106447732638176","","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "10","UNIQUE","1014.ON.CA","1014.ON.CA","1","6","0.7","0.3","0.000189709886365061","","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"
  "11","UNIQUE","1015.ON.CA","1015.ON.CA","1","6","0.7","0.3","0.00305577349200876","","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "12","UNIQUE","1016.ON.CA","1016.ON.CA","1","6","0.7","0.3","0.00157098153054483","","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "13","UNIQUE","1017.ON.CA","1017.ON.CA","1","6","0.7","0.3","0.00152456631045129","","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "14","UNIQUE","1018.ON.CA","1018.ON.CA","1","6","0.7","0.3","0.00154533572761724","","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "15","UNIQUE","1019.ON.CA","1019.ON.CA","1","6","0.7","0.3","0.00247710910454597","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "16","UNIQUE","1020.ON.CA","1020.ON.CA","1","6","0.7","0.3","0.00160243565959588","","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.3, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1001.ON.CA","1001.ON.CA","1","6","0.7","0.3","0.00131808345978478","","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "2","CHECK_UNIQUE","1002.ON.CA","1002.ON.CA","2","6","0.7","0.3","0.00410489004453238","","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "2","MULTIPLE_MATCH","1002.ON.CA","1010.ON.CA","2","6","0.7","0.3","","0.7","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "3","CHECK_UNIQUE","1003.ON.CA","1003.ON.CA","4","6","0.7","0.3","0.000749708839980945","","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "3","MULTIPLE_MATCH","1003.ON.CA","1005.ON.CA","4","6","0.7","0.3","0.000749708839980945","1","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "3","MULTIPLE_MATCH","1003.ON.CA","1008.ON.CA","4","6","0.7","0.3","","0.7","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "3","MULTIPLE_MATCH","1003.ON.CA","1009.ON.CA","4","6","0.7","0.3","","0.7","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "4","UNIQUE","1004.ON.CA","1004.ON.CA","1","6","0.7","0.3","0.000547435332727722","","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "5","UNIQUE","1006.ON.CA","1006.ON.CA","2","6","0.7","0.3","0.00123998120698213","","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "5","MATCH","1006.ON.CA","1007.ON.CA","2","6","0.7","0.3","0.00123998120698213","1","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "6","CHECK_UNIQUE","1008.ON.CA","1008.ON.CA","4","6","0.7","0.3","0.00306698613871686","","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "6","MULTIPLE_MATCH","1008.ON.CA","1009.ON.CA","4","6","0.7","0.3","0.00306698613871686","1","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "6","MULTIPLE_MATCH","1008.ON.CA","1003.ON.CA","4","6","0.7","0.3","","0.7","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "6","MULTIPLE_MATCH","1008.ON.CA","1005.ON.CA","4","6","0.7","0.3","","0.7","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "7","CHECK_UNIQUE","1010.ON.CA","1010.ON.CA","2","6","0.7","0.3","0.0013726774927697","","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "7","MULTIPLE_MATCH","1010.ON.CA","1002.ON.CA","2","6","0.7","0.3","","0.7","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "8","UNIQUE","1011.ON.CA","1011.ON.CA","2","6","0.7","0.3","0.00199065910266615","","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "8","MATCH","1011.ON.CA","1012.ON.CA","2","6","0.7","0.3","0.00199065910266615","1","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "9","UNIQUE","1013.ON.CA","1013.ON.CA","1","6","0.7","0.3","0.00106447732638176","","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "10","UNIQUE","1014.ON.CA","1014.ON.CA","1","6","0.7","0.3","0.000189709886365061","","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"
  "11","UNIQUE","1015.ON.CA","1015.ON.CA","1","6","0.7","0.3","0.00305577349200876","","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "12","UNIQUE","1016.ON.CA","1016.ON.CA","1","6","0.7","0.3","0.00157098153054483","","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "13","UNIQUE","1017.ON.CA","1017.ON.CA","1","6","0.7","0.3","0.00152456631045129","","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "14","UNIQUE","1018.ON.CA","1018.ON.CA","1","6","0.7","0.3","0.00154533572761724","","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "15","UNIQUE","1019.ON.CA","1019.ON.CA","1","6","0.7","0.3","0.00247710910454597","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "16","UNIQUE","1020.ON.CA","1020.ON.CA","1","6","0.7","0.3","0.00160243565959588","","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.3, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1001.ON.CA","1001.ON.CA","1","6","0.7","0.3","0.00131808345978478","","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "2","CHECK_UNIQUE","1002.ON.CA","1002.ON.CA","2","6","0.7","0.3","0.00410489004453238","","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "2","MULTIPLE_MATCH","1002.ON.CA","1010.ON.CA","2","6","0.7","0.3","","0.7","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "3","CHECK_UNIQUE","1003.ON.CA","1003.ON.CA","4","6","0.7","0.3","0.000749708839980945","","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "3","MULTIPLE_MATCH","1003.ON.CA","1005.ON.CA","4","6","0.7","0.3","0.000749708839980945","1","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "3","MULTIPLE_MATCH","1003.ON.CA","1008.ON.CA","4","6","0.7","0.3","","0.7","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "3","MULTIPLE_MATCH","1003.ON.CA","1009.ON.CA","4","6","0.7","0.3","","0.7","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "4","UNIQUE","1004.ON.CA","1004.ON.CA","1","6","0.7","0.3","0.000547435332727722","","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "5","UNIQUE","1006.ON.CA","1006.ON.CA","2","6","0.7","0.3","0.00123998120698213","","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "5","MATCH","1006.ON.CA","1007.ON.CA","2","6","0.7","0.3","0.00123998120698213","1","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "6","CHECK_UNIQUE","1008.ON.CA","1008.ON.CA","4","6","0.7","0.3","0.00306698613871686","","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "6","MULTIPLE_MATCH","1008.ON.CA","1009.ON.CA","4","6","0.7","0.3","0.00306698613871686","1","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "6","MULTIPLE_MATCH","1008.ON.CA","1003.ON.CA","4","6","0.7","0.3","","0.7","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "6","MULTIPLE_MATCH","1008.ON.CA","1005.ON.CA","4","6","0.7","0.3","","0.7","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "7","CHECK_UNIQUE","1010.ON.CA","1010.ON.CA","2","6","0.7","0.3","0.0013726774927697","","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "7","MULTIPLE_MATCH","1010.ON.CA","1002.ON.CA","2","6","0.7","0.3","","0.7","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "8","UNIQUE","1011.ON.CA","1011.ON.CA","2","6","0.7","0.3","0.00199065910266615","","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "8","MATCH","1011.ON.CA","1012.ON.CA","2","6","0.7","0.3","0.00199065910266615","1","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "9","UNIQUE","1013.ON.CA","1013.ON.CA","1","6","0.7","0.3","0.00106447732638176","","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "10","UNIQUE","1014.ON.CA","1014.ON.CA","1","6","0.7","0.3","0.000189709886365061","","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"
  "11","UNIQUE","1015.ON.CA","1015.ON.CA","1","6","0.7","0.3","0.00305577349200876","","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "12","UNIQUE","1016.ON.CA","1016.ON.CA","1","6","0.7","0.3","0.00157098153054483","","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "13","UNIQUE","1017.ON.CA","1017.ON.CA","1","6","0.7","0.3","0.00152456631045129","","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "14","UNIQUE","1018.ON.CA","1018.ON.CA","1","6","0.7","0.3","0.00154533572761724","","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "15","UNIQUE","1019.ON.CA","1019.ON.CA","1","6","0.7","0.3","0.00247710910454597","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "16","UNIQUE","1020.ON.CA","1020.ON.CA","1","6","0.7","0.3","0.00160243565959588","","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.3, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1001.ON.CA","1001.ON.CA","1","6","0.7","0.3","0.00131808345978478","","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "2","CHECK_UNIQUE","1002.ON.CA","1002.ON.CA","2","6","0.7","0.3","0.00410489004453238","","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "2","MULTIPLE_MATCH","1002.ON.CA","1010.ON.CA","2","6","0.7","0.3","","0.7","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "3","CHECK_UNIQUE","1003.ON.CA","1003.ON.CA","4","6","0.7","0.3","0.000749708839980945","","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "3","MULTIPLE_MATCH","1003.ON.CA","1005.ON.CA","4","6","0.7","0.3","0.000749708839980945","1","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "3","MULTIPLE_MATCH","1003.ON.CA","1008.ON.CA","4","6","0.7","0.3","","0.7","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "3","MULTIPLE_MATCH","1003.ON.CA","1009.ON.CA","4","6","0.7","0.3","","0.7","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "4","UNIQUE","1004.ON.CA","1004.ON.CA","1","6","0.7","0.3","0.000547435332727722","","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "5","UNIQUE","1006.ON.CA","1006.ON.CA","2","6","0.7","0.3","0.00123998120698213","","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "5","MATCH","1006.ON.CA","1007.ON.CA","2","6","0.7","0.3","0.00123998120698213","1","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "6","CHECK_UNIQUE","1008.ON.CA","1008.ON.CA","4","6","0.7","0.3","0.00306698613871686","","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "6","MULTIPLE_MATCH","1008.ON.CA","1009.ON.CA","4","6","0.7","0.3","0.00306698613871686","1","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "6","MULTIPLE_MATCH","1008.ON.CA","1003.ON.CA","4","6","0.7","0.3","","0.7","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "6","MULTIPLE_MATCH","1008.ON.CA","1005.ON.CA","4","6","0.7","0.3","","0.7","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "7","CHECK_UNIQUE","1010.ON.CA","1010.ON.CA","2","6","0.7","0.3","0.0013726774927697","","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "7","MULTIPLE_MATCH","1010.ON.CA","1002.ON.CA","2","6","0.7","0.3","","0.7","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "8","UNIQUE","1011.ON.CA","1011.ON.CA","2","6","0.7","0.3","0.00199065910266615","","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "8","MATCH","1011.ON.CA","1012.ON.CA","2","6","0.7","0.3","0.00199065910266615","1","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "9","UNIQUE","1013.ON.CA","1013.ON.CA","1","6","0.7","0.3","0.00106447732638176","","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "10","UNIQUE","1014.ON.CA","1014.ON.CA","1","6","0.7","0.3","0.000189709886365061","","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"
  "11","UNIQUE","1015.ON.CA","1015.ON.CA","1","6","0.7","0.3","0.00305577349200876","","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "12","UNIQUE","1016.ON.CA","1016.ON.CA","1","6","0.7","0.3","0.00157098153054483","","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "13","UNIQUE","1017.ON.CA","1017.ON.CA","1","6","0.7","0.3","0.00152456631045129","","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "14","UNIQUE","1018.ON.CA","1018.ON.CA","1","6","0.7","0.3","0.00154533572761724","","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "15","UNIQUE","1019.ON.CA","1019.ON.CA","1","6","0.7","0.3","0.00247710910454597","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "16","UNIQUE","1020.ON.CA","1020.ON.CA","1","6","0.7","0.3","0.00160243565959588","","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.3, doPsib="all", consensusMethod=1)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1001.ON.CA","1001.ON.CA","1","6","0.7","0.3","0.00131808345978478","","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "2","CHECK_UNIQUE","1002.ON.CA","1002.ON.CA","2","6","0.7","0.3","0.00410489004453238","","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "2","MULTIPLE_MATCH","1002.ON.CA","1010.ON.CA","2","6","0.7","0.3","0.166273572532809","0.7","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "3","CHECK_UNIQUE","1003.ON.CA","1003.ON.CA","4","6","0.7","0.3","0.000749708839980945","","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "3","MULTIPLE_MATCH","1003.ON.CA","1005.ON.CA","4","6","0.7","0.3","0.000749708839980945","1","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "3","MULTIPLE_MATCH","1003.ON.CA","1008.ON.CA","4","6","0.7","0.3","0.180350853130221","0.7","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "3","MULTIPLE_MATCH","1003.ON.CA","1009.ON.CA","4","6","0.7","0.3","0.180350853130221","0.7","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "4","UNIQUE","1004.ON.CA","1004.ON.CA","1","6","0.7","0.3","0.000547435332727722","","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "5","UNIQUE","1006.ON.CA","1006.ON.CA","2","6","0.7","0.3","0.00123998120698213","","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "5","MATCH","1006.ON.CA","1007.ON.CA","2","6","0.7","0.3","0.00123998120698213","1","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "6","CHECK_UNIQUE","1008.ON.CA","1008.ON.CA","4","6","0.7","0.3","0.00306698613871686","","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "6","MULTIPLE_MATCH","1008.ON.CA","1009.ON.CA","4","6","0.7","0.3","0.00306698613871686","1","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "6","MULTIPLE_MATCH","1008.ON.CA","1003.ON.CA","4","6","0.7","0.3","0.180350853130221","0.7","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "6","MULTIPLE_MATCH","1008.ON.CA","1005.ON.CA","4","6","0.7","0.3","0.180350853130221","0.7","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "7","CHECK_UNIQUE","1010.ON.CA","1010.ON.CA","2","6","0.7","0.3","0.0013726774927697","","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "7","MULTIPLE_MATCH","1010.ON.CA","1002.ON.CA","2","6","0.7","0.3","0.166273572532809","0.7","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "8","UNIQUE","1011.ON.CA","1011.ON.CA","2","6","0.7","0.3","0.00199065910266615","","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "8","MATCH","1011.ON.CA","1012.ON.CA","2","6","0.7","0.3","0.00199065910266615","1","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "9","UNIQUE","1013.ON.CA","1013.ON.CA","1","6","0.7","0.3","0.00106447732638176","","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "10","UNIQUE","1014.ON.CA","1014.ON.CA","1","6","0.7","0.3","0.000189709886365061","","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"
  "11","UNIQUE","1015.ON.CA","1015.ON.CA","1","6","0.7","0.3","0.00305577349200876","","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "12","UNIQUE","1016.ON.CA","1016.ON.CA","1","6","0.7","0.3","0.00157098153054483","","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "13","UNIQUE","1017.ON.CA","1017.ON.CA","1","6","0.7","0.3","0.00152456631045129","","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "14","UNIQUE","1018.ON.CA","1018.ON.CA","1","6","0.7","0.3","0.00154533572761724","","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "15","UNIQUE","1019.ON.CA","1019.ON.CA","1","6","0.7","0.3","0.00247710910454597","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "16","UNIQUE","1020.ON.CA","1020.ON.CA","1","6","0.7","0.3","0.00160243565959588","","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.3, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1001.ON.CA","1001.ON.CA","1","6","0.7","0.3","0.00131808345978478","","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "2","CHECK_UNIQUE","1002.ON.CA","1002.ON.CA","2","6","0.7","0.3","0.00410489004453238","","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "2","MULTIPLE_MATCH","1002.ON.CA","1010.ON.CA","2","6","0.7","0.3","0.166273572532809","0.7","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "3","CHECK_UNIQUE","1003.ON.CA","1003.ON.CA","4","6","0.7","0.3","0.000749708839980945","","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "3","MULTIPLE_MATCH","1003.ON.CA","1005.ON.CA","4","6","0.7","0.3","0.000749708839980945","1","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "3","MULTIPLE_MATCH","1003.ON.CA","1008.ON.CA","4","6","0.7","0.3","0.180350853130221","0.7","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "3","MULTIPLE_MATCH","1003.ON.CA","1009.ON.CA","4","6","0.7","0.3","0.180350853130221","0.7","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "4","UNIQUE","1004.ON.CA","1004.ON.CA","1","6","0.7","0.3","0.000547435332727722","","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "5","UNIQUE","1006.ON.CA","1006.ON.CA","2","6","0.7","0.3","0.00123998120698213","","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "5","MATCH","1006.ON.CA","1007.ON.CA","2","6","0.7","0.3","0.00123998120698213","1","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "6","CHECK_UNIQUE","1008.ON.CA","1008.ON.CA","4","6","0.7","0.3","0.00306698613871686","","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "6","MULTIPLE_MATCH","1008.ON.CA","1009.ON.CA","4","6","0.7","0.3","0.00306698613871686","1","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "6","MULTIPLE_MATCH","1008.ON.CA","1003.ON.CA","4","6","0.7","0.3","0.180350853130221","0.7","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "6","MULTIPLE_MATCH","1008.ON.CA","1005.ON.CA","4","6","0.7","0.3","0.180350853130221","0.7","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "7","CHECK_UNIQUE","1010.ON.CA","1010.ON.CA","2","6","0.7","0.3","0.0013726774927697","","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "7","MULTIPLE_MATCH","1010.ON.CA","1002.ON.CA","2","6","0.7","0.3","0.166273572532809","0.7","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "8","UNIQUE","1011.ON.CA","1011.ON.CA","2","6","0.7","0.3","0.00199065910266615","","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "8","MATCH","1011.ON.CA","1012.ON.CA","2","6","0.7","0.3","0.00199065910266615","1","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "9","UNIQUE","1013.ON.CA","1013.ON.CA","1","6","0.7","0.3","0.00106447732638176","","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "10","UNIQUE","1014.ON.CA","1014.ON.CA","1","6","0.7","0.3","0.000189709886365061","","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"
  "11","UNIQUE","1015.ON.CA","1015.ON.CA","1","6","0.7","0.3","0.00305577349200876","","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "12","UNIQUE","1016.ON.CA","1016.ON.CA","1","6","0.7","0.3","0.00157098153054483","","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "13","UNIQUE","1017.ON.CA","1017.ON.CA","1","6","0.7","0.3","0.00152456631045129","","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "14","UNIQUE","1018.ON.CA","1018.ON.CA","1","6","0.7","0.3","0.00154533572761724","","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "15","UNIQUE","1019.ON.CA","1019.ON.CA","1","6","0.7","0.3","0.00247710910454597","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "16","UNIQUE","1020.ON.CA","1020.ON.CA","1","6","0.7","0.3","0.00160243565959588","","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.3, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1001.ON.CA","1001.ON.CA","1","6","0.7","0.3","0.00131808345978478","","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "2","CHECK_UNIQUE","1002.ON.CA","1002.ON.CA","2","6","0.7","0.3","0.00410489004453238","","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "2","MULTIPLE_MATCH","1002.ON.CA","1010.ON.CA","2","6","0.7","0.3","0.166273572532809","0.7","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "3","CHECK_UNIQUE","1003.ON.CA","1003.ON.CA","4","6","0.7","0.3","0.000749708839980945","","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "3","MULTIPLE_MATCH","1003.ON.CA","1005.ON.CA","4","6","0.7","0.3","0.000749708839980945","1","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "3","MULTIPLE_MATCH","1003.ON.CA","1008.ON.CA","4","6","0.7","0.3","0.180350853130221","0.7","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "3","MULTIPLE_MATCH","1003.ON.CA","1009.ON.CA","4","6","0.7","0.3","0.180350853130221","0.7","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "4","UNIQUE","1004.ON.CA","1004.ON.CA","1","6","0.7","0.3","0.000547435332727722","","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "5","UNIQUE","1006.ON.CA","1006.ON.CA","2","6","0.7","0.3","0.00123998120698213","","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "5","MATCH","1006.ON.CA","1007.ON.CA","2","6","0.7","0.3","0.00123998120698213","1","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "6","CHECK_UNIQUE","1008.ON.CA","1008.ON.CA","4","6","0.7","0.3","0.00306698613871686","","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "6","MULTIPLE_MATCH","1008.ON.CA","1009.ON.CA","4","6","0.7","0.3","0.00306698613871686","1","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "6","MULTIPLE_MATCH","1008.ON.CA","1003.ON.CA","4","6","0.7","0.3","0.180350853130221","0.7","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "6","MULTIPLE_MATCH","1008.ON.CA","1005.ON.CA","4","6","0.7","0.3","0.180350853130221","0.7","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "7","CHECK_UNIQUE","1010.ON.CA","1010.ON.CA","2","6","0.7","0.3","0.0013726774927697","","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "7","MULTIPLE_MATCH","1010.ON.CA","1002.ON.CA","2","6","0.7","0.3","0.166273572532809","0.7","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "8","UNIQUE","1011.ON.CA","1011.ON.CA","2","6","0.7","0.3","0.00199065910266615","","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "8","MATCH","1011.ON.CA","1012.ON.CA","2","6","0.7","0.3","0.00199065910266615","1","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "9","UNIQUE","1013.ON.CA","1013.ON.CA","1","6","0.7","0.3","0.00106447732638176","","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "10","UNIQUE","1014.ON.CA","1014.ON.CA","1","6","0.7","0.3","0.000189709886365061","","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"
  "11","UNIQUE","1015.ON.CA","1015.ON.CA","1","6","0.7","0.3","0.00305577349200876","","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "12","UNIQUE","1016.ON.CA","1016.ON.CA","1","6","0.7","0.3","0.00157098153054483","","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "13","UNIQUE","1017.ON.CA","1017.ON.CA","1","6","0.7","0.3","0.00152456631045129","","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "14","UNIQUE","1018.ON.CA","1018.ON.CA","1","6","0.7","0.3","0.00154533572761724","","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "15","UNIQUE","1019.ON.CA","1019.ON.CA","1","6","0.7","0.3","0.00247710910454597","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "16","UNIQUE","1020.ON.CA","1020.ON.CA","1","6","0.7","0.3","0.00160243565959588","","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.3, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1001.ON.CA","1001.ON.CA","1","6","0.7","0.3","0.00131808345978478","","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "2","CHECK_UNIQUE","1002.ON.CA","1002.ON.CA","2","6","0.7","0.3","0.00410489004453238","","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "2","MULTIPLE_MATCH","1002.ON.CA","1010.ON.CA","2","6","0.7","0.3","0.166273572532809","0.7","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "3","CHECK_UNIQUE","1003.ON.CA","1003.ON.CA","4","6","0.7","0.3","0.000749708839980945","","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "3","MULTIPLE_MATCH","1003.ON.CA","1005.ON.CA","4","6","0.7","0.3","0.000749708839980945","1","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "3","MULTIPLE_MATCH","1003.ON.CA","1008.ON.CA","4","6","0.7","0.3","0.180350853130221","0.7","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "3","MULTIPLE_MATCH","1003.ON.CA","1009.ON.CA","4","6","0.7","0.3","0.180350853130221","0.7","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "4","UNIQUE","1004.ON.CA","1004.ON.CA","1","6","0.7","0.3","0.000547435332727722","","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "5","UNIQUE","1006.ON.CA","1006.ON.CA","2","6","0.7","0.3","0.00123998120698213","","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "5","MATCH","1006.ON.CA","1007.ON.CA","2","6","0.7","0.3","0.00123998120698213","1","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "6","CHECK_UNIQUE","1008.ON.CA","1008.ON.CA","4","6","0.7","0.3","0.00306698613871686","","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "6","MULTIPLE_MATCH","1008.ON.CA","1009.ON.CA","4","6","0.7","0.3","0.00306698613871686","1","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "6","MULTIPLE_MATCH","1008.ON.CA","1003.ON.CA","4","6","0.7","0.3","0.180350853130221","0.7","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "6","MULTIPLE_MATCH","1008.ON.CA","1005.ON.CA","4","6","0.7","0.3","0.180350853130221","0.7","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "7","CHECK_UNIQUE","1010.ON.CA","1010.ON.CA","2","6","0.7","0.3","0.0013726774927697","","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "7","MULTIPLE_MATCH","1010.ON.CA","1002.ON.CA","2","6","0.7","0.3","0.166273572532809","0.7","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "8","UNIQUE","1011.ON.CA","1011.ON.CA","2","6","0.7","0.3","0.00199065910266615","","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "8","MATCH","1011.ON.CA","1012.ON.CA","2","6","0.7","0.3","0.00199065910266615","1","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "9","UNIQUE","1013.ON.CA","1013.ON.CA","1","6","0.7","0.3","0.00106447732638176","","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "10","UNIQUE","1014.ON.CA","1014.ON.CA","1","6","0.7","0.3","0.000189709886365061","","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"
  "11","UNIQUE","1015.ON.CA","1015.ON.CA","1","6","0.7","0.3","0.00305577349200876","","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "12","UNIQUE","1016.ON.CA","1016.ON.CA","1","6","0.7","0.3","0.00157098153054483","","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "13","UNIQUE","1017.ON.CA","1017.ON.CA","1","6","0.7","0.3","0.00152456631045129","","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "14","UNIQUE","1018.ON.CA","1018.ON.CA","1","6","0.7","0.3","0.00154533572761724","","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "15","UNIQUE","1019.ON.CA","1019.ON.CA","1","6","0.7","0.3","0.00247710910454597","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "16","UNIQUE","1020.ON.CA","1020.ON.CA","1","6","0.7","0.3","0.00160243565959588","","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.5, doPsib="missing", consensusMethod=1)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  'x' must be atomic 
    Rejected :  amUnique(amdataExample5, cutHeight=0.5, doPsib="missing", consensusMethod=1)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.5, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","1014.ON.CA","","","10","0.5","0.5","","","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"
  "1","CHECK_UNIQUE","1001.ON.CA","1001.ON.CA","11","10","0.5","0.5","0.00550423139407311","","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1008.ON.CA","11","10","0.5","0.5","","0.65","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1009.ON.CA","11","10","0.5","0.5","","0.65","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1002.ON.CA","11","10","0.5","0.5","","0.6","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "1","MATCH","1001.ON.CA","1004.ON.CA","11","10","0.5","0.5","","0.55","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "1","MULTIPLE_MATCH","1001.ON.CA","1017.ON.CA","11","10","0.5","0.5","","0.55","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1003.ON.CA","11","10","0.5","0.5","","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MULTIPLE_MATCH","1001.ON.CA","1005.ON.CA","11","10","0.5","0.5","","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1001.ON.CA","1010.ON.CA","11","10","0.5","0.5","","0.5","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1018.ON.CA","11","10","0.5","0.5","","0.5","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1020.ON.CA","11","10","0.5","0.5","","0.5","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "2","CHECK_UNIQUE","1003.ON.CA","1003.ON.CA","8","10","0.5","0.5","0.00345724698581984","","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "2","MULTIPLE_MATCH","1003.ON.CA","1005.ON.CA","8","10","0.5","0.5","0.00345724698581984","1","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "2","MULTIPLE_MATCH","1003.ON.CA","1008.ON.CA","8","10","0.5","0.5","","0.7","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "2","MULTIPLE_MATCH","1003.ON.CA","1009.ON.CA","8","10","0.5","0.5","","0.7","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "2","MULTIPLE_MATCH","1003.ON.CA","1017.ON.CA","8","10","0.5","0.5","","0.55","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "2","MULTIPLE_MATCH","1003.ON.CA","1001.ON.CA","8","10","0.5","0.5","","0.5","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "2","MULTIPLE_MATCH","1003.ON.CA","1018.ON.CA","8","10","0.5","0.5","","0.5","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "2","MULTIPLE_MATCH","1003.ON.CA","1019.ON.CA","8","10","0.5","0.5","","0.5","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "3","CHECK_UNIQUE","1011.ON.CA","1011.ON.CA","10","10","0.5","0.5","0.00255025390662211","","382","384","224","224","159","159","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "3","MATCH","1011.ON.CA","1012.ON.CA","10","10","0.5","0.5","0.00255025390662211","0.95","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "3","MULTIPLE_MATCH","1011.ON.CA","1019.ON.CA","10","10","0.5","0.5","","0.65","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "3","MATCH","1011.ON.CA","1015.ON.CA","10","10","0.5","0.5","","0.6","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "3","MATCH","1011.ON.CA","1016.ON.CA","10","10","0.5","0.5","","0.6","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "3","MULTIPLE_MATCH","1011.ON.CA","1002.ON.CA","10","10","0.5","0.5","","0.55","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "3","MATCH","1011.ON.CA","1006.ON.CA","10","10","0.5","0.5","","0.5","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "3","MATCH","1011.ON.CA","1007.ON.CA","10","10","0.5","0.5","","0.5","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "3","MATCH","1011.ON.CA","1013.ON.CA","10","10","0.5","0.5","","0.5","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "3","MULTIPLE_MATCH","1011.ON.CA","1020.ON.CA","10","10","0.5","0.5","","0.5","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.5, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","CHECK_UNIQUE","1001.ON.CA","1001.ON.CA","11","10","0.5","0.5","0.00305539589240133","","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1008.ON.CA","11","10","0.5","0.5","","0.65","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1009.ON.CA","11","10","0.5","0.5","","0.65","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1002.ON.CA","11","10","0.5","0.5","","0.6","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1004.ON.CA","11","10","0.5","0.5","","0.55","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "1","MULTIPLE_MATCH","1001.ON.CA","1017.ON.CA","11","10","0.5","0.5","","0.55","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1003.ON.CA","11","10","0.5","0.5","","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MULTIPLE_MATCH","1001.ON.CA","1005.ON.CA","11","10","0.5","0.5","","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MULTIPLE_MATCH","1001.ON.CA","1010.ON.CA","11","10","0.5","0.5","","0.5","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1018.ON.CA","11","10","0.5","0.5","","0.5","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1020.ON.CA","11","10","0.5","0.5","","0.5","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "2","CHECK_UNIQUE","1003.ON.CA","1003.ON.CA","8","10","0.5","0.5","0.00147923113486215","","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "2","MULTIPLE_MATCH","1003.ON.CA","1005.ON.CA","8","10","0.5","0.5","0.00147923113486215","1","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "2","MULTIPLE_MATCH","1003.ON.CA","1008.ON.CA","8","10","0.5","0.5","","0.7","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "2","MULTIPLE_MATCH","1003.ON.CA","1009.ON.CA","8","10","0.5","0.5","","0.7","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "2","MULTIPLE_MATCH","1003.ON.CA","1017.ON.CA","8","10","0.5","0.5","","0.55","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "2","MULTIPLE_MATCH","1003.ON.CA","1001.ON.CA","8","10","0.5","0.5","","0.5","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "2","MULTIPLE_MATCH","1003.ON.CA","1018.ON.CA","8","10","0.5","0.5","","0.5","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "2","MULTIPLE_MATCH","1003.ON.CA","1019.ON.CA","8","10","0.5","0.5","","0.5","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "3","CHECK_UNIQUE","1014.ON.CA","1014.ON.CA","3","10","0.5","0.5","0.000408839189065813","","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"
  "3","MULTIPLE_MATCH","1014.ON.CA","1004.ON.CA","3","10","0.5","0.5","","0.55","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "3","MATCH","1014.ON.CA","1013.ON.CA","3","10","0.5","0.5","","0.5","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "4","CHECK_UNIQUE","1019.ON.CA","1019.ON.CA","16","10","0.5","0.5","0.00333482490205123","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "4","MULTIPLE_MATCH","1019.ON.CA","1002.ON.CA","16","10","0.5","0.5","","0.65","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "4","MULTIPLE_MATCH","1019.ON.CA","1020.ON.CA","16","10","0.5","0.5","","0.65","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "4","MATCH","1019.ON.CA","1011.ON.CA","16","10","0.5","0.5","","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "4","MATCH","1019.ON.CA","1012.ON.CA","16","10","0.5","0.5","","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "4","MATCH","1019.ON.CA","1015.ON.CA","16","10","0.5","0.5","","0.6","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "4","MULTIPLE_MATCH","1019.ON.CA","1017.ON.CA","16","10","0.5","0.5","","0.6","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "4","MATCH","1019.ON.CA","1006.ON.CA","16","10","0.5","0.5","","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "4","MATCH","1019.ON.CA","1007.ON.CA","16","10","0.5","0.5","","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "4","MULTIPLE_MATCH","1019.ON.CA","1008.ON.CA","16","10","0.5","0.5","","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "4","MULTIPLE_MATCH","1019.ON.CA","1009.ON.CA","16","10","0.5","0.5","","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "4","MULTIPLE_MATCH","1019.ON.CA","1003.ON.CA","16","10","0.5","0.5","","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "4","MULTIPLE_MATCH","1019.ON.CA","1005.ON.CA","16","10","0.5","0.5","","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "4","MULTIPLE_MATCH","1019.ON.CA","1010.ON.CA","16","10","0.5","0.5","","0.5","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "4","MATCH","1019.ON.CA","1016.ON.CA","16","10","0.5","0.5","","0.5","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "4","MULTIPLE_MATCH","1019.ON.CA","1018.ON.CA","16","10","0.5","0.5","","0.5","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.5, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","CHECK_UNIQUE","1001.ON.CA","1001.ON.CA","11","10","0.5","0.5","0.00305539589240133","","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1008.ON.CA","11","10","0.5","0.5","","0.65","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1009.ON.CA","11","10","0.5","0.5","","0.65","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1002.ON.CA","11","10","0.5","0.5","","0.6","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1004.ON.CA","11","10","0.5","0.5","","0.55","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "1","MULTIPLE_MATCH","1001.ON.CA","1017.ON.CA","11","10","0.5","0.5","","0.55","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1003.ON.CA","11","10","0.5","0.5","","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MULTIPLE_MATCH","1001.ON.CA","1005.ON.CA","11","10","0.5","0.5","","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MULTIPLE_MATCH","1001.ON.CA","1010.ON.CA","11","10","0.5","0.5","","0.5","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1018.ON.CA","11","10","0.5","0.5","","0.5","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1020.ON.CA","11","10","0.5","0.5","","0.5","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "2","CHECK_UNIQUE","1003.ON.CA","1003.ON.CA","8","10","0.5","0.5","0.00147923113486215","","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "2","MULTIPLE_MATCH","1003.ON.CA","1005.ON.CA","8","10","0.5","0.5","0.00147923113486215","1","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "2","MULTIPLE_MATCH","1003.ON.CA","1008.ON.CA","8","10","0.5","0.5","","0.7","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "2","MULTIPLE_MATCH","1003.ON.CA","1009.ON.CA","8","10","0.5","0.5","","0.7","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "2","MULTIPLE_MATCH","1003.ON.CA","1017.ON.CA","8","10","0.5","0.5","","0.55","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "2","MULTIPLE_MATCH","1003.ON.CA","1001.ON.CA","8","10","0.5","0.5","","0.5","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "2","MULTIPLE_MATCH","1003.ON.CA","1018.ON.CA","8","10","0.5","0.5","","0.5","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "2","MULTIPLE_MATCH","1003.ON.CA","1019.ON.CA","8","10","0.5","0.5","","0.5","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "3","CHECK_UNIQUE","1014.ON.CA","1014.ON.CA","3","10","0.5","0.5","0.000408839189065813","","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"
  "3","MULTIPLE_MATCH","1014.ON.CA","1004.ON.CA","3","10","0.5","0.5","","0.55","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "3","MATCH","1014.ON.CA","1013.ON.CA","3","10","0.5","0.5","","0.5","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "4","CHECK_UNIQUE","1019.ON.CA","1019.ON.CA","16","10","0.5","0.5","0.00333482490205123","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "4","MULTIPLE_MATCH","1019.ON.CA","1002.ON.CA","16","10","0.5","0.5","","0.65","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "4","MULTIPLE_MATCH","1019.ON.CA","1020.ON.CA","16","10","0.5","0.5","","0.65","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "4","MATCH","1019.ON.CA","1011.ON.CA","16","10","0.5","0.5","","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "4","MATCH","1019.ON.CA","1012.ON.CA","16","10","0.5","0.5","","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "4","MATCH","1019.ON.CA","1015.ON.CA","16","10","0.5","0.5","","0.6","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "4","MULTIPLE_MATCH","1019.ON.CA","1017.ON.CA","16","10","0.5","0.5","","0.6","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "4","MATCH","1019.ON.CA","1006.ON.CA","16","10","0.5","0.5","","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "4","MATCH","1019.ON.CA","1007.ON.CA","16","10","0.5","0.5","","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "4","MULTIPLE_MATCH","1019.ON.CA","1008.ON.CA","16","10","0.5","0.5","","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "4","MULTIPLE_MATCH","1019.ON.CA","1009.ON.CA","16","10","0.5","0.5","","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "4","MULTIPLE_MATCH","1019.ON.CA","1003.ON.CA","16","10","0.5","0.5","","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "4","MULTIPLE_MATCH","1019.ON.CA","1005.ON.CA","16","10","0.5","0.5","","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "4","MULTIPLE_MATCH","1019.ON.CA","1010.ON.CA","16","10","0.5","0.5","","0.5","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "4","MATCH","1019.ON.CA","1016.ON.CA","16","10","0.5","0.5","","0.5","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "4","MULTIPLE_MATCH","1019.ON.CA","1018.ON.CA","16","10","0.5","0.5","","0.5","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.5, doPsib="all", consensusMethod=1)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  'x' must be atomic 
    Rejected :  amUnique(amdataExample5, cutHeight=0.5, doPsib="all", consensusMethod=1)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.5, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "","UNCLASSIFIED","1014.ON.CA","","","10","0.5","0.5","","","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"
  "1","CHECK_UNIQUE","1001.ON.CA","1001.ON.CA","11","10","0.5","0.5","0.00550423139407311","","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1008.ON.CA","11","10","0.5","0.5","0.184461805555556","0.65","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1009.ON.CA","11","10","0.5","0.5","0.184461805555556","0.65","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1002.ON.CA","11","10","0.5","0.5","0.0828872492283951","0.6","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "1","MATCH","1001.ON.CA","1004.ON.CA","11","10","0.5","0.5","0.28858024691358","0.55","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "1","MULTIPLE_MATCH","1001.ON.CA","1017.ON.CA","11","10","0.5","0.5","0.694444444444444","0.55","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1003.ON.CA","11","10","0.5","0.5","1","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MULTIPLE_MATCH","1001.ON.CA","1005.ON.CA","11","10","0.5","0.5","1","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1001.ON.CA","1010.ON.CA","11","10","0.5","0.5","0.238715277777778","0.5","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1018.ON.CA","11","10","0.5","0.5","0.694444444444444","0.5","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1020.ON.CA","11","10","0.5","0.5","0.200402949245542","0.5","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "2","CHECK_UNIQUE","1003.ON.CA","1003.ON.CA","8","10","0.5","0.5","0.00345724698581984","","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "2","MULTIPLE_MATCH","1003.ON.CA","1005.ON.CA","8","10","0.5","0.5","0.00345724698581984","1","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "2","MULTIPLE_MATCH","1003.ON.CA","1008.ON.CA","8","10","0.5","0.5","0.318287037037037","0.7","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "2","MULTIPLE_MATCH","1003.ON.CA","1009.ON.CA","8","10","0.5","0.5","0.318287037037037","0.7","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "2","MULTIPLE_MATCH","1003.ON.CA","1017.ON.CA","8","10","0.5","0.5","0.458333333333333","0.55","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "2","MULTIPLE_MATCH","1003.ON.CA","1001.ON.CA","8","10","0.5","0.5","1","0.5","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "2","MULTIPLE_MATCH","1003.ON.CA","1018.ON.CA","8","10","0.5","0.5","0.458333333333333","0.5","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "2","MULTIPLE_MATCH","1003.ON.CA","1019.ON.CA","8","10","0.5","0.5","1","0.5","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "3","CHECK_UNIQUE","1011.ON.CA","1011.ON.CA","10","10","0.5","0.5","0.00255025390662211","","382","384","224","224","159","159","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "3","MATCH","1011.ON.CA","1012.ON.CA","10","10","0.5","0.5","0.00255025390662211","0.95","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "3","MULTIPLE_MATCH","1011.ON.CA","1019.ON.CA","10","10","0.5","0.5","0.152777777777778","0.65","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "3","MATCH","1011.ON.CA","1015.ON.CA","10","10","0.5","0.5","0.25","0.6","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "3","MATCH","1011.ON.CA","1016.ON.CA","10","10","0.5","0.5","0.0943072702331962","0.6","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "3","MULTIPLE_MATCH","1011.ON.CA","1002.ON.CA","10","10","0.5","0.5","0.138454861111111","0.55","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "3","MATCH","1011.ON.CA","1006.ON.CA","10","10","0.5","0.5","0.246141975308642","0.5","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "3","MATCH","1011.ON.CA","1007.ON.CA","10","10","0.5","0.5","0.246141975308642","0.5","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "3","MATCH","1011.ON.CA","1013.ON.CA","10","10","0.5","0.5","0.0933641975308642","0.5","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "3","MULTIPLE_MATCH","1011.ON.CA","1020.ON.CA","10","10","0.5","0.5","0.34375","0.5","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.5, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","CHECK_UNIQUE","1001.ON.CA","1001.ON.CA","11","10","0.5","0.5","0.00305539589240133","","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1008.ON.CA","11","10","0.5","0.5","0.128825962543488","0.65","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1009.ON.CA","11","10","0.5","0.5","0.128825962543488","0.65","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1002.ON.CA","11","10","0.5","0.5","0.0638576969504356","0.6","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1004.ON.CA","11","10","0.5","0.5","0.216827392578125","0.55","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "1","MULTIPLE_MATCH","1001.ON.CA","1017.ON.CA","11","10","0.5","0.5","0.50543212890625","0.55","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1003.ON.CA","11","10","0.5","0.5","0.765625","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MULTIPLE_MATCH","1001.ON.CA","1005.ON.CA","11","10","0.5","0.5","0.765625","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MULTIPLE_MATCH","1001.ON.CA","1010.ON.CA","11","10","0.5","0.5","0.232086181640625","0.5","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1018.ON.CA","11","10","0.5","0.5","0.50543212890625","0.5","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1020.ON.CA","11","10","0.5","0.5","0.143139958381653","0.5","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "2","CHECK_UNIQUE","1003.ON.CA","1003.ON.CA","8","10","0.5","0.5","0.00147923113486215","","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "2","MULTIPLE_MATCH","1003.ON.CA","1005.ON.CA","8","10","0.5","0.5","0.00147923113486215","1","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "2","MULTIPLE_MATCH","1003.ON.CA","1008.ON.CA","8","10","0.5","0.5","0.218696594238281","0.7","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "2","MULTIPLE_MATCH","1003.ON.CA","1009.ON.CA","8","10","0.5","0.5","0.218696594238281","0.7","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "2","MULTIPLE_MATCH","1003.ON.CA","1017.ON.CA","8","10","0.5","0.5","0.3349609375","0.55","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "2","MULTIPLE_MATCH","1003.ON.CA","1001.ON.CA","8","10","0.5","0.5","0.765625","0.5","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "2","MULTIPLE_MATCH","1003.ON.CA","1018.ON.CA","8","10","0.5","0.5","0.3349609375","0.5","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "2","MULTIPLE_MATCH","1003.ON.CA","1019.ON.CA","8","10","0.5","0.5","0.765625","0.5","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "3","CHECK_UNIQUE","1014.ON.CA","1014.ON.CA","3","10","0.5","0.5","0.000408839189065813","","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"
  "3","MULTIPLE_MATCH","1014.ON.CA","1004.ON.CA","3","10","0.5","0.5","0.2021484375","0.55","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "3","MATCH","1014.ON.CA","1013.ON.CA","3","10","0.5","0.5","0.390625","0.5","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "4","CHECK_UNIQUE","1019.ON.CA","1019.ON.CA","16","10","0.5","0.5","0.00333482490205123","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "4","MULTIPLE_MATCH","1019.ON.CA","1002.ON.CA","16","10","0.5","0.5","0.0839867535978556","0.65","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "4","MULTIPLE_MATCH","1019.ON.CA","1020.ON.CA","16","10","0.5","0.5","0.0721869617700577","0.65","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "4","MATCH","1019.ON.CA","1011.ON.CA","16","10","0.5","0.5","0.127222537994385","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "4","MATCH","1019.ON.CA","1012.ON.CA","16","10","0.5","0.5","0.127222537994385","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "4","MATCH","1019.ON.CA","1015.ON.CA","16","10","0.5","0.5","0.134378805756569","0.6","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "4","MULTIPLE_MATCH","1019.ON.CA","1017.ON.CA","16","10","0.5","0.5","0.104516848921776","0.6","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "4","MATCH","1019.ON.CA","1006.ON.CA","16","10","0.5","0.5","0.128332376480103","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "4","MATCH","1019.ON.CA","1007.ON.CA","16","10","0.5","0.5","0.128332376480103","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "4","MULTIPLE_MATCH","1019.ON.CA","1008.ON.CA","16","10","0.5","0.5","0.205331802368164","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "4","MULTIPLE_MATCH","1019.ON.CA","1009.ON.CA","16","10","0.5","0.5","0.205331802368164","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "4","MULTIPLE_MATCH","1019.ON.CA","1003.ON.CA","16","10","0.5","0.5","0.765625","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "4","MULTIPLE_MATCH","1019.ON.CA","1005.ON.CA","16","10","0.5","0.5","0.765625","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "4","MULTIPLE_MATCH","1019.ON.CA","1010.ON.CA","16","10","0.5","0.5","0.232086181640625","0.5","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "4","MATCH","1019.ON.CA","1016.ON.CA","16","10","0.5","0.5","0.195016860961914","0.5","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "4","MULTIPLE_MATCH","1019.ON.CA","1018.ON.CA","16","10","0.5","0.5","0.205331802368164","0.5","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.5, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","CHECK_UNIQUE","1001.ON.CA","1001.ON.CA","11","10","0.5","0.5","0.00305539589240133","","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1008.ON.CA","11","10","0.5","0.5","0.128825962543488","0.65","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1009.ON.CA","11","10","0.5","0.5","0.128825962543488","0.65","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1002.ON.CA","11","10","0.5","0.5","0.0638576969504356","0.6","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1004.ON.CA","11","10","0.5","0.5","0.216827392578125","0.55","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "1","MULTIPLE_MATCH","1001.ON.CA","1017.ON.CA","11","10","0.5","0.5","0.50543212890625","0.55","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1003.ON.CA","11","10","0.5","0.5","0.765625","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MULTIPLE_MATCH","1001.ON.CA","1005.ON.CA","11","10","0.5","0.5","0.765625","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MULTIPLE_MATCH","1001.ON.CA","1010.ON.CA","11","10","0.5","0.5","0.232086181640625","0.5","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1018.ON.CA","11","10","0.5","0.5","0.50543212890625","0.5","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1020.ON.CA","11","10","0.5","0.5","0.143139958381653","0.5","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "2","CHECK_UNIQUE","1003.ON.CA","1003.ON.CA","8","10","0.5","0.5","0.00147923113486215","","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "2","MULTIPLE_MATCH","1003.ON.CA","1005.ON.CA","8","10","0.5","0.5","0.00147923113486215","1","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "2","MULTIPLE_MATCH","1003.ON.CA","1008.ON.CA","8","10","0.5","0.5","0.218696594238281","0.7","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "2","MULTIPLE_MATCH","1003.ON.CA","1009.ON.CA","8","10","0.5","0.5","0.218696594238281","0.7","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "2","MULTIPLE_MATCH","1003.ON.CA","1017.ON.CA","8","10","0.5","0.5","0.3349609375","0.55","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "2","MULTIPLE_MATCH","1003.ON.CA","1001.ON.CA","8","10","0.5","0.5","0.765625","0.5","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "2","MULTIPLE_MATCH","1003.ON.CA","1018.ON.CA","8","10","0.5","0.5","0.3349609375","0.5","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "2","MULTIPLE_MATCH","1003.ON.CA","1019.ON.CA","8","10","0.5","0.5","0.765625","0.5","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "3","CHECK_UNIQUE","1014.ON.CA","1014.ON.CA","3","10","0.5","0.5","0.000408839189065813","","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"
  "3","MULTIPLE_MATCH","1014.ON.CA","1004.ON.CA","3","10","0.5","0.5","0.2021484375","0.55","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "3","MATCH","1014.ON.CA","1013.ON.CA","3","10","0.5","0.5","0.390625","0.5","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "4","CHECK_UNIQUE","1019.ON.CA","1019.ON.CA","16","10","0.5","0.5","0.00333482490205123","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "4","MULTIPLE_MATCH","1019.ON.CA","1002.ON.CA","16","10","0.5","0.5","0.0839867535978556","0.65","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "4","MULTIPLE_MATCH","1019.ON.CA","1020.ON.CA","16","10","0.5","0.5","0.0721869617700577","0.65","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "4","MATCH","1019.ON.CA","1011.ON.CA","16","10","0.5","0.5","0.127222537994385","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "4","MATCH","1019.ON.CA","1012.ON.CA","16","10","0.5","0.5","0.127222537994385","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "4","MATCH","1019.ON.CA","1015.ON.CA","16","10","0.5","0.5","0.134378805756569","0.6","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "4","MULTIPLE_MATCH","1019.ON.CA","1017.ON.CA","16","10","0.5","0.5","0.104516848921776","0.6","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "4","MATCH","1019.ON.CA","1006.ON.CA","16","10","0.5","0.5","0.128332376480103","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "4","MATCH","1019.ON.CA","1007.ON.CA","16","10","0.5","0.5","0.128332376480103","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "4","MULTIPLE_MATCH","1019.ON.CA","1008.ON.CA","16","10","0.5","0.5","0.205331802368164","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "4","MULTIPLE_MATCH","1019.ON.CA","1009.ON.CA","16","10","0.5","0.5","0.205331802368164","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "4","MULTIPLE_MATCH","1019.ON.CA","1003.ON.CA","16","10","0.5","0.5","0.765625","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "4","MULTIPLE_MATCH","1019.ON.CA","1005.ON.CA","16","10","0.5","0.5","0.765625","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "4","MULTIPLE_MATCH","1019.ON.CA","1010.ON.CA","16","10","0.5","0.5","0.232086181640625","0.5","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "4","MATCH","1019.ON.CA","1016.ON.CA","16","10","0.5","0.5","0.195016860961914","0.5","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "4","MULTIPLE_MATCH","1019.ON.CA","1018.ON.CA","16","10","0.5","0.5","0.205331802368164","0.5","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.7, doPsib="missing", consensusMethod=1)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  'x' must be atomic 
    Rejected :  amUnique(amdataExample5, cutHeight=0.7, doPsib="missing", consensusMethod=1)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.7, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","CHECK_UNIQUE","1001.ON.CA","1001.ON.CA","16","14","0.3","0.7","0.00617489190199194","","382","384","230","236","159","159","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "1","MATCH","1001.ON.CA","1008.ON.CA","16","14","0.3","0.7","","0.6","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1001.ON.CA","1009.ON.CA","16","14","0.3","0.7","","0.6","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1001.ON.CA","1002.ON.CA","16","14","0.3","0.7","","0.55","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1004.ON.CA","16","14","0.3","0.7","","0.5","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "1","MATCH","1001.ON.CA","1017.ON.CA","16","14","0.3","0.7","","0.5","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "1","MATCH","1001.ON.CA","1003.ON.CA","16","14","0.3","0.7","","0.45","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1001.ON.CA","1005.ON.CA","16","14","0.3","0.7","","0.45","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1001.ON.CA","1010.ON.CA","16","14","0.3","0.7","","0.45","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1018.ON.CA","16","14","0.3","0.7","","0.45","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "1","MATCH","1001.ON.CA","1019.ON.CA","16","14","0.3","0.7","","0.45","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "1","MATCH","1001.ON.CA","1020.ON.CA","16","14","0.3","0.7","","0.45","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "1","MATCH","1001.ON.CA","1006.ON.CA","16","14","0.3","0.7","","0.35","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1001.ON.CA","1007.ON.CA","16","14","0.3","0.7","","0.35","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1013.ON.CA","16","14","0.3","0.7","","0.35","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "1","MATCH","1001.ON.CA","1015.ON.CA","16","14","0.3","0.7","","0.35","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "2","CHECK_UNIQUE","1014.ON.CA","1014.ON.CA","7","14","0.3","0.7","0.00415320661471696","","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"
  "2","MULTIPLE_MATCH","1014.ON.CA","1004.ON.CA","7","14","0.3","0.7","","0.55","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "2","MULTIPLE_MATCH","1014.ON.CA","1013.ON.CA","7","14","0.3","0.7","","0.5","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "2","MATCH","1014.ON.CA","1016.ON.CA","7","14","0.3","0.7","","0.4","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "2","MATCH","1014.ON.CA","1011.ON.CA","7","14","0.3","0.7","","0.35","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "2","MATCH","1014.ON.CA","1012.ON.CA","7","14","0.3","0.7","","0.35","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "2","MULTIPLE_MATCH","1014.ON.CA","1018.ON.CA","7","14","0.3","0.7","","0.35","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.7, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","CHECK_UNIQUE","1014.ON.CA","1014.ON.CA","7","14","0.3","0.7","0.00445964415143862","","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"
  "1","MULTIPLE_MATCH","1014.ON.CA","1004.ON.CA","7","14","0.3","0.7","","0.55","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "1","MULTIPLE_MATCH","1014.ON.CA","1013.ON.CA","7","14","0.3","0.7","","0.5","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "1","MULTIPLE_MATCH","1014.ON.CA","1016.ON.CA","7","14","0.3","0.7","","0.4","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "1","MULTIPLE_MATCH","1014.ON.CA","1011.ON.CA","7","14","0.3","0.7","","0.35","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MULTIPLE_MATCH","1014.ON.CA","1012.ON.CA","7","14","0.3","0.7","","0.35","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MULTIPLE_MATCH","1014.ON.CA","1018.ON.CA","7","14","0.3","0.7","","0.35","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "2","CHECK_UNIQUE","1019.ON.CA","1019.ON.CA","19","14","0.3","0.7","0.00575059377422349","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "2","MATCH","1019.ON.CA","1002.ON.CA","19","14","0.3","0.7","","0.65","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "2","MATCH","1019.ON.CA","1020.ON.CA","19","14","0.3","0.7","","0.65","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "2","MULTIPLE_MATCH","1019.ON.CA","1011.ON.CA","19","14","0.3","0.7","","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "2","MULTIPLE_MATCH","1019.ON.CA","1012.ON.CA","19","14","0.3","0.7","","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "2","MATCH","1019.ON.CA","1015.ON.CA","19","14","0.3","0.7","","0.6","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "2","MATCH","1019.ON.CA","1017.ON.CA","19","14","0.3","0.7","","0.6","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "2","MATCH","1019.ON.CA","1006.ON.CA","19","14","0.3","0.7","","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "2","MATCH","1019.ON.CA","1007.ON.CA","19","14","0.3","0.7","","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "2","MATCH","1019.ON.CA","1008.ON.CA","19","14","0.3","0.7","","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "2","MATCH","1019.ON.CA","1009.ON.CA","19","14","0.3","0.7","","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "2","MATCH","1019.ON.CA","1003.ON.CA","19","14","0.3","0.7","","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "2","MATCH","1019.ON.CA","1005.ON.CA","19","14","0.3","0.7","","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "2","MATCH","1019.ON.CA","1010.ON.CA","19","14","0.3","0.7","","0.5","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "2","MULTIPLE_MATCH","1019.ON.CA","1016.ON.CA","19","14","0.3","0.7","","0.5","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "2","MULTIPLE_MATCH","1019.ON.CA","1018.ON.CA","19","14","0.3","0.7","","0.5","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "2","MULTIPLE_MATCH","1019.ON.CA","1013.ON.CA","19","14","0.3","0.7","","0.45","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "2","MATCH","1019.ON.CA","1001.ON.CA","19","14","0.3","0.7","","0.4","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "2","MULTIPLE_MATCH","1019.ON.CA","1004.ON.CA","19","14","0.3","0.7","","0.4","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.7, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","CHECK_UNIQUE","1014.ON.CA","1014.ON.CA","7","14","0.3","0.7","0.00445964415143862","","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"
  "1","MULTIPLE_MATCH","1014.ON.CA","1004.ON.CA","7","14","0.3","0.7","","0.55","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "1","MULTIPLE_MATCH","1014.ON.CA","1013.ON.CA","7","14","0.3","0.7","","0.5","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "1","MULTIPLE_MATCH","1014.ON.CA","1016.ON.CA","7","14","0.3","0.7","","0.4","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "1","MULTIPLE_MATCH","1014.ON.CA","1011.ON.CA","7","14","0.3","0.7","","0.35","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MULTIPLE_MATCH","1014.ON.CA","1012.ON.CA","7","14","0.3","0.7","","0.35","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MULTIPLE_MATCH","1014.ON.CA","1018.ON.CA","7","14","0.3","0.7","","0.35","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "2","CHECK_UNIQUE","1019.ON.CA","1019.ON.CA","19","14","0.3","0.7","0.00575059377422349","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "2","MATCH","1019.ON.CA","1002.ON.CA","19","14","0.3","0.7","","0.65","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "2","MATCH","1019.ON.CA","1020.ON.CA","19","14","0.3","0.7","","0.65","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "2","MULTIPLE_MATCH","1019.ON.CA","1011.ON.CA","19","14","0.3","0.7","","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "2","MULTIPLE_MATCH","1019.ON.CA","1012.ON.CA","19","14","0.3","0.7","","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "2","MATCH","1019.ON.CA","1015.ON.CA","19","14","0.3","0.7","","0.6","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "2","MATCH","1019.ON.CA","1017.ON.CA","19","14","0.3","0.7","","0.6","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "2","MATCH","1019.ON.CA","1006.ON.CA","19","14","0.3","0.7","","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "2","MATCH","1019.ON.CA","1007.ON.CA","19","14","0.3","0.7","","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "2","MATCH","1019.ON.CA","1008.ON.CA","19","14","0.3","0.7","","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "2","MATCH","1019.ON.CA","1009.ON.CA","19","14","0.3","0.7","","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "2","MATCH","1019.ON.CA","1003.ON.CA","19","14","0.3","0.7","","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "2","MATCH","1019.ON.CA","1005.ON.CA","19","14","0.3","0.7","","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "2","MATCH","1019.ON.CA","1010.ON.CA","19","14","0.3","0.7","","0.5","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "2","MULTIPLE_MATCH","1019.ON.CA","1016.ON.CA","19","14","0.3","0.7","","0.5","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "2","MULTIPLE_MATCH","1019.ON.CA","1018.ON.CA","19","14","0.3","0.7","","0.5","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "2","MULTIPLE_MATCH","1019.ON.CA","1013.ON.CA","19","14","0.3","0.7","","0.45","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "2","MATCH","1019.ON.CA","1001.ON.CA","19","14","0.3","0.7","","0.4","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "2","MULTIPLE_MATCH","1019.ON.CA","1004.ON.CA","19","14","0.3","0.7","","0.4","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.7, doPsib="all", consensusMethod=1)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  'x' must be atomic 
    Rejected :  amUnique(amdataExample5, cutHeight=0.7, doPsib="all", consensusMethod=1)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.7, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","CHECK_UNIQUE","1001.ON.CA","1001.ON.CA","16","14","0.3","0.7","0.00617489190199194","","382","384","230","236","159","159","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "1","MATCH","1001.ON.CA","1008.ON.CA","16","14","0.3","0.7","0.105674743652344","0.6","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1001.ON.CA","1009.ON.CA","16","14","0.3","0.7","0.105674743652344","0.6","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1001.ON.CA","1002.ON.CA","16","14","0.3","0.7","0.0429303646087646","0.55","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1004.ON.CA","16","14","0.3","0.7","0.19830322265625","0.5","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "1","MATCH","1001.ON.CA","1017.ON.CA","16","14","0.3","0.7","0.31640625","0.5","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "1","MATCH","1001.ON.CA","1003.ON.CA","16","14","0.3","0.7","0.5625","0.45","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1001.ON.CA","1005.ON.CA","16","14","0.3","0.7","0.5625","0.45","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1001.ON.CA","1010.ON.CA","16","14","0.3","0.7","0.1878662109375","0.45","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1018.ON.CA","16","14","0.3","0.7","0.31640625","0.45","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "1","MATCH","1001.ON.CA","1019.ON.CA","16","14","0.3","0.7","0.1878662109375","0.45","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "1","MATCH","1001.ON.CA","1020.ON.CA","16","14","0.3","0.7","0.111545562744141","0.45","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "1","MATCH","1001.ON.CA","1006.ON.CA","16","14","0.3","0.7","0.1878662109375","0.35","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1001.ON.CA","1007.ON.CA","16","14","0.3","0.7","0.1878662109375","0.35","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MULTIPLE_MATCH","1001.ON.CA","1013.ON.CA","16","14","0.3","0.7","0.333984375","0.35","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "1","MATCH","1001.ON.CA","1015.ON.CA","16","14","0.3","0.7","0.31640625","0.35","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "2","CHECK_UNIQUE","1014.ON.CA","1014.ON.CA","7","14","0.3","0.7","0.00415320661471696","","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"
  "2","MULTIPLE_MATCH","1014.ON.CA","1004.ON.CA","7","14","0.3","0.7","0.2412109375","0.55","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "2","MULTIPLE_MATCH","1014.ON.CA","1013.ON.CA","7","14","0.3","0.7","0.5625","0.5","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "2","MATCH","1014.ON.CA","1016.ON.CA","7","14","0.3","0.7","0.5625","0.4","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "2","MATCH","1014.ON.CA","1011.ON.CA","7","14","0.3","0.7","1","0.35","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "2","MATCH","1014.ON.CA","1012.ON.CA","7","14","0.3","0.7","1","0.35","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "2","MULTIPLE_MATCH","1014.ON.CA","1018.ON.CA","7","14","0.3","0.7","0.586181640625","0.35","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.7, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","CHECK_UNIQUE","1014.ON.CA","1014.ON.CA","7","14","0.3","0.7","0.00445964415143862","","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"
  "1","MULTIPLE_MATCH","1014.ON.CA","1004.ON.CA","7","14","0.3","0.7","0.2412109375","0.55","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "1","MULTIPLE_MATCH","1014.ON.CA","1013.ON.CA","7","14","0.3","0.7","0.5625","0.5","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "1","MULTIPLE_MATCH","1014.ON.CA","1016.ON.CA","7","14","0.3","0.7","0.5625","0.4","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "1","MULTIPLE_MATCH","1014.ON.CA","1011.ON.CA","7","14","0.3","0.7","1","0.35","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MULTIPLE_MATCH","1014.ON.CA","1012.ON.CA","7","14","0.3","0.7","1","0.35","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MULTIPLE_MATCH","1014.ON.CA","1018.ON.CA","7","14","0.3","0.7","0.4306640625","0.35","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "2","CHECK_UNIQUE","1019.ON.CA","1019.ON.CA","19","14","0.3","0.7","0.00575059377422349","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "2","MATCH","1019.ON.CA","1002.ON.CA","19","14","0.3","0.7","0.0809072256088257","0.65","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "2","MATCH","1019.ON.CA","1020.ON.CA","19","14","0.3","0.7","0.0584329962730408","0.65","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "2","MULTIPLE_MATCH","1019.ON.CA","1011.ON.CA","19","14","0.3","0.7","0.195775508880615","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "2","MULTIPLE_MATCH","1019.ON.CA","1012.ON.CA","19","14","0.3","0.7","0.195775508880615","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "2","MATCH","1019.ON.CA","1015.ON.CA","19","14","0.3","0.7","0.185471534729004","0.6","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "2","MATCH","1019.ON.CA","1017.ON.CA","19","14","0.3","0.7","0.0723037719726562","0.6","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "2","MATCH","1019.ON.CA","1006.ON.CA","19","14","0.3","0.7","0.0763206481933594","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "2","MATCH","1019.ON.CA","1007.ON.CA","19","14","0.3","0.7","0.0763206481933594","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "2","MATCH","1019.ON.CA","1008.ON.CA","19","14","0.3","0.7","0.1285400390625","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "2","MATCH","1019.ON.CA","1009.ON.CA","19","14","0.3","0.7","0.1285400390625","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "2","MATCH","1019.ON.CA","1003.ON.CA","19","14","0.3","0.7","0.5625","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "2","MATCH","1019.ON.CA","1005.ON.CA","19","14","0.3","0.7","0.5625","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "2","MATCH","1019.ON.CA","1010.ON.CA","19","14","0.3","0.7","0.255706787109375","0.5","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "2","MULTIPLE_MATCH","1019.ON.CA","1016.ON.CA","19","14","0.3","0.7","0.255706787109375","0.5","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "2","MULTIPLE_MATCH","1019.ON.CA","1018.ON.CA","19","14","0.3","0.7","0.1285400390625","0.5","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "2","MULTIPLE_MATCH","1019.ON.CA","1013.ON.CA","19","14","0.3","0.7","0.348045349121094","0.45","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "2","MATCH","1019.ON.CA","1001.ON.CA","19","14","0.3","0.7","0.1878662109375","0.4","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "2","MULTIPLE_MATCH","1019.ON.CA","1004.ON.CA","19","14","0.3","0.7","0.255706787109375","0.4","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.7, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","CHECK_UNIQUE","1014.ON.CA","1014.ON.CA","7","14","0.3","0.7","0.00445964415143862","","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"
  "1","MULTIPLE_MATCH","1014.ON.CA","1004.ON.CA","7","14","0.3","0.7","0.2412109375","0.55","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "1","MULTIPLE_MATCH","1014.ON.CA","1013.ON.CA","7","14","0.3","0.7","0.5625","0.5","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "1","MULTIPLE_MATCH","1014.ON.CA","1016.ON.CA","7","14","0.3","0.7","0.5625","0.4","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "1","MULTIPLE_MATCH","1014.ON.CA","1011.ON.CA","7","14","0.3","0.7","1","0.35","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MULTIPLE_MATCH","1014.ON.CA","1012.ON.CA","7","14","0.3","0.7","1","0.35","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MULTIPLE_MATCH","1014.ON.CA","1018.ON.CA","7","14","0.3","0.7","0.4306640625","0.35","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "2","CHECK_UNIQUE","1019.ON.CA","1019.ON.CA","19","14","0.3","0.7","0.00575059377422349","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "2","MATCH","1019.ON.CA","1002.ON.CA","19","14","0.3","0.7","0.0809072256088257","0.65","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "2","MATCH","1019.ON.CA","1020.ON.CA","19","14","0.3","0.7","0.0584329962730408","0.65","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "2","MULTIPLE_MATCH","1019.ON.CA","1011.ON.CA","19","14","0.3","0.7","0.195775508880615","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "2","MULTIPLE_MATCH","1019.ON.CA","1012.ON.CA","19","14","0.3","0.7","0.195775508880615","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "2","MATCH","1019.ON.CA","1015.ON.CA","19","14","0.3","0.7","0.185471534729004","0.6","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "2","MATCH","1019.ON.CA","1017.ON.CA","19","14","0.3","0.7","0.0723037719726562","0.6","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "2","MATCH","1019.ON.CA","1006.ON.CA","19","14","0.3","0.7","0.0763206481933594","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "2","MATCH","1019.ON.CA","1007.ON.CA","19","14","0.3","0.7","0.0763206481933594","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "2","MATCH","1019.ON.CA","1008.ON.CA","19","14","0.3","0.7","0.1285400390625","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "2","MATCH","1019.ON.CA","1009.ON.CA","19","14","0.3","0.7","0.1285400390625","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "2","MATCH","1019.ON.CA","1003.ON.CA","19","14","0.3","0.7","0.5625","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "2","MATCH","1019.ON.CA","1005.ON.CA","19","14","0.3","0.7","0.5625","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "2","MATCH","1019.ON.CA","1010.ON.CA","19","14","0.3","0.7","0.255706787109375","0.5","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "2","MULTIPLE_MATCH","1019.ON.CA","1016.ON.CA","19","14","0.3","0.7","0.255706787109375","0.5","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "2","MULTIPLE_MATCH","1019.ON.CA","1018.ON.CA","19","14","0.3","0.7","0.1285400390625","0.5","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "2","MULTIPLE_MATCH","1019.ON.CA","1013.ON.CA","19","14","0.3","0.7","0.348045349121094","0.45","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "2","MATCH","1019.ON.CA","1001.ON.CA","19","14","0.3","0.7","0.1878662109375","0.4","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "2","MULTIPLE_MATCH","1019.ON.CA","1004.ON.CA","19","14","0.3","0.7","0.255706787109375","0.4","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.9, doPsib="missing", consensusMethod=1)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  'x' must be atomic 
    Rejected :  amUnique(amdataExample5, cutHeight=0.9, doPsib="missing", consensusMethod=1)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.9, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1002.ON.CA","1002.ON.CA","20","18","0.1","0.9","0.152587890625","","382","384","230","236","155","159","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "1","MATCH","1002.ON.CA","1010.ON.CA","20","18","0.1","0.9","","0.65","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "1","MATCH","1002.ON.CA","1019.ON.CA","20","18","0.1","0.9","","0.65","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "1","MATCH","1002.ON.CA","1006.ON.CA","20","18","0.1","0.9","","0.6","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1002.ON.CA","1007.ON.CA","20","18","0.1","0.9","","0.6","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1002.ON.CA","1017.ON.CA","20","18","0.1","0.9","","0.6","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "1","MATCH","1002.ON.CA","1001.ON.CA","20","18","0.1","0.9","","0.55","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "1","MATCH","1002.ON.CA","1011.ON.CA","20","18","0.1","0.9","","0.55","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1002.ON.CA","1012.ON.CA","20","18","0.1","0.9","","0.55","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1002.ON.CA","1020.ON.CA","20","18","0.1","0.9","","0.55","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "1","MATCH","1002.ON.CA","1008.ON.CA","20","18","0.1","0.9","","0.5","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1002.ON.CA","1009.ON.CA","20","18","0.1","0.9","","0.5","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1002.ON.CA","1013.ON.CA","20","18","0.1","0.9","","0.45","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "1","MATCH","1002.ON.CA","1015.ON.CA","20","18","0.1","0.9","","0.45","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "1","MATCH","1002.ON.CA","1018.ON.CA","20","18","0.1","0.9","","0.45","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "1","MATCH","1002.ON.CA","1003.ON.CA","20","18","0.1","0.9","","0.4","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1002.ON.CA","1004.ON.CA","20","18","0.1","0.9","","0.4","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "1","MATCH","1002.ON.CA","1005.ON.CA","20","18","0.1","0.9","","0.4","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1002.ON.CA","1016.ON.CA","20","18","0.1","0.9","","0.4","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "1","MATCH","1002.ON.CA","1014.ON.CA","20","18","0.1","0.9","","0.2","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.9, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1019.ON.CA","1019.ON.CA","20","18","0.1","0.9","0.244140625","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "1","MATCH","1019.ON.CA","1002.ON.CA","20","18","0.1","0.9","","0.65","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "1","MATCH","1019.ON.CA","1020.ON.CA","20","18","0.1","0.9","","0.65","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "1","MATCH","1019.ON.CA","1011.ON.CA","20","18","0.1","0.9","","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1019.ON.CA","1012.ON.CA","20","18","0.1","0.9","","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1019.ON.CA","1015.ON.CA","20","18","0.1","0.9","","0.6","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "1","MATCH","1019.ON.CA","1017.ON.CA","20","18","0.1","0.9","","0.6","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "1","MATCH","1019.ON.CA","1006.ON.CA","20","18","0.1","0.9","","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1019.ON.CA","1007.ON.CA","20","18","0.1","0.9","","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1019.ON.CA","1008.ON.CA","20","18","0.1","0.9","","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1009.ON.CA","20","18","0.1","0.9","","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1003.ON.CA","20","18","0.1","0.9","","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1019.ON.CA","1005.ON.CA","20","18","0.1","0.9","","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1019.ON.CA","1010.ON.CA","20","18","0.1","0.9","","0.5","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "1","MATCH","1019.ON.CA","1016.ON.CA","20","18","0.1","0.9","","0.5","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "1","MATCH","1019.ON.CA","1018.ON.CA","20","18","0.1","0.9","","0.5","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "1","MATCH","1019.ON.CA","1013.ON.CA","20","18","0.1","0.9","","0.45","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "1","MATCH","1019.ON.CA","1001.ON.CA","20","18","0.1","0.9","","0.4","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1004.ON.CA","20","18","0.1","0.9","","0.4","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "1","MATCH","1019.ON.CA","1014.ON.CA","20","18","0.1","0.9","","0.2","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.9, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1019.ON.CA","1019.ON.CA","20","18","0.1","0.9","0.244140625","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "1","MATCH","1019.ON.CA","1002.ON.CA","20","18","0.1","0.9","","0.65","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "1","MATCH","1019.ON.CA","1020.ON.CA","20","18","0.1","0.9","","0.65","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "1","MATCH","1019.ON.CA","1011.ON.CA","20","18","0.1","0.9","","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1019.ON.CA","1012.ON.CA","20","18","0.1","0.9","","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1019.ON.CA","1015.ON.CA","20","18","0.1","0.9","","0.6","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "1","MATCH","1019.ON.CA","1017.ON.CA","20","18","0.1","0.9","","0.6","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "1","MATCH","1019.ON.CA","1006.ON.CA","20","18","0.1","0.9","","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1019.ON.CA","1007.ON.CA","20","18","0.1","0.9","","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1019.ON.CA","1008.ON.CA","20","18","0.1","0.9","","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1009.ON.CA","20","18","0.1","0.9","","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1003.ON.CA","20","18","0.1","0.9","","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1019.ON.CA","1005.ON.CA","20","18","0.1","0.9","","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1019.ON.CA","1010.ON.CA","20","18","0.1","0.9","","0.5","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "1","MATCH","1019.ON.CA","1016.ON.CA","20","18","0.1","0.9","","0.5","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "1","MATCH","1019.ON.CA","1018.ON.CA","20","18","0.1","0.9","","0.5","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "1","MATCH","1019.ON.CA","1013.ON.CA","20","18","0.1","0.9","","0.45","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "1","MATCH","1019.ON.CA","1001.ON.CA","20","18","0.1","0.9","","0.4","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1004.ON.CA","20","18","0.1","0.9","","0.4","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "1","MATCH","1019.ON.CA","1014.ON.CA","20","18","0.1","0.9","","0.2","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.9, doPsib="all", consensusMethod=1)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  'x' must be atomic 
    Rejected :  amUnique(amdataExample5, cutHeight=0.9, doPsib="all", consensusMethod=1)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.9, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1002.ON.CA","1002.ON.CA","20","18","0.1","0.9","0.152587890625","","382","384","230","236","155","159","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "1","MATCH","1002.ON.CA","1010.ON.CA","20","18","0.1","0.9","0.625","0.65","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "1","MATCH","1002.ON.CA","1019.ON.CA","20","18","0.1","0.9","0.625","0.65","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "1","MATCH","1002.ON.CA","1006.ON.CA","20","18","0.1","0.9","0.244140625","0.6","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1002.ON.CA","1007.ON.CA","20","18","0.1","0.9","0.244140625","0.6","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1002.ON.CA","1017.ON.CA","20","18","0.1","0.9","1","0.6","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "1","MATCH","1002.ON.CA","1001.ON.CA","20","18","0.1","0.9","0.390625","0.55","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "1","MATCH","1002.ON.CA","1011.ON.CA","20","18","0.1","0.9","0.390625","0.55","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1002.ON.CA","1012.ON.CA","20","18","0.1","0.9","0.390625","0.55","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1002.ON.CA","1020.ON.CA","20","18","0.1","0.9","0.625","0.55","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "1","MATCH","1002.ON.CA","1008.ON.CA","20","18","0.1","0.9","1","0.5","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1002.ON.CA","1009.ON.CA","20","18","0.1","0.9","1","0.5","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1002.ON.CA","1013.ON.CA","20","18","0.1","0.9","0.625","0.45","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "1","MATCH","1002.ON.CA","1015.ON.CA","20","18","0.1","0.9","1","0.45","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "1","MATCH","1002.ON.CA","1018.ON.CA","20","18","0.1","0.9","1","0.45","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "1","MATCH","1002.ON.CA","1003.ON.CA","20","18","0.1","0.9","1","0.4","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1002.ON.CA","1004.ON.CA","20","18","0.1","0.9","0.625","0.4","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "1","MATCH","1002.ON.CA","1005.ON.CA","20","18","0.1","0.9","1","0.4","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1002.ON.CA","1016.ON.CA","20","18","0.1","0.9","0.625","0.4","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "1","MATCH","1002.ON.CA","1014.ON.CA","20","18","0.1","0.9","1","0.2","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.9, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1019.ON.CA","1019.ON.CA","20","18","0.1","0.9","0.244140625","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "1","MATCH","1019.ON.CA","1002.ON.CA","20","18","0.1","0.9","0.625","0.65","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "1","MATCH","1019.ON.CA","1020.ON.CA","20","18","0.1","0.9","0.390625","0.65","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "1","MATCH","1019.ON.CA","1011.ON.CA","20","18","0.1","0.9","0.625","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1019.ON.CA","1012.ON.CA","20","18","0.1","0.9","0.625","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1019.ON.CA","1015.ON.CA","20","18","0.1","0.9","1","0.6","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "1","MATCH","1019.ON.CA","1017.ON.CA","20","18","0.1","0.9","0.625","0.6","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "1","MATCH","1019.ON.CA","1006.ON.CA","20","18","0.1","0.9","0.390625","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1019.ON.CA","1007.ON.CA","20","18","0.1","0.9","0.390625","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1019.ON.CA","1008.ON.CA","20","18","0.1","0.9","0.625","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1009.ON.CA","20","18","0.1","0.9","0.625","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1003.ON.CA","20","18","0.1","0.9","1","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1019.ON.CA","1005.ON.CA","20","18","0.1","0.9","1","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1019.ON.CA","1010.ON.CA","20","18","0.1","0.9","0.625","0.5","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "1","MATCH","1019.ON.CA","1016.ON.CA","20","18","0.1","0.9","0.625","0.5","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "1","MATCH","1019.ON.CA","1018.ON.CA","20","18","0.1","0.9","0.625","0.5","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "1","MATCH","1019.ON.CA","1013.ON.CA","20","18","0.1","0.9","0.625","0.45","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "1","MATCH","1019.ON.CA","1001.ON.CA","20","18","0.1","0.9","0.625","0.4","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1004.ON.CA","20","18","0.1","0.9","0.625","0.4","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "1","MATCH","1019.ON.CA","1014.ON.CA","20","18","0.1","0.9","1","0.2","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.9, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1019.ON.CA","1019.ON.CA","20","18","0.1","0.9","0.244140625","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "1","MATCH","1019.ON.CA","1002.ON.CA","20","18","0.1","0.9","0.625","0.65","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "1","MATCH","1019.ON.CA","1020.ON.CA","20","18","0.1","0.9","0.390625","0.65","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "1","MATCH","1019.ON.CA","1011.ON.CA","20","18","0.1","0.9","0.625","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1019.ON.CA","1012.ON.CA","20","18","0.1","0.9","0.625","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1019.ON.CA","1015.ON.CA","20","18","0.1","0.9","1","0.6","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "1","MATCH","1019.ON.CA","1017.ON.CA","20","18","0.1","0.9","0.625","0.6","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "1","MATCH","1019.ON.CA","1006.ON.CA","20","18","0.1","0.9","0.390625","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1019.ON.CA","1007.ON.CA","20","18","0.1","0.9","0.390625","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1019.ON.CA","1008.ON.CA","20","18","0.1","0.9","0.625","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1009.ON.CA","20","18","0.1","0.9","0.625","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1003.ON.CA","20","18","0.1","0.9","1","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1019.ON.CA","1005.ON.CA","20","18","0.1","0.9","1","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1019.ON.CA","1010.ON.CA","20","18","0.1","0.9","0.625","0.5","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "1","MATCH","1019.ON.CA","1016.ON.CA","20","18","0.1","0.9","0.625","0.5","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "1","MATCH","1019.ON.CA","1018.ON.CA","20","18","0.1","0.9","0.625","0.5","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "1","MATCH","1019.ON.CA","1013.ON.CA","20","18","0.1","0.9","0.625","0.45","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "1","MATCH","1019.ON.CA","1001.ON.CA","20","18","0.1","0.9","0.625","0.4","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1004.ON.CA","20","18","0.1","0.9","0.625","0.4","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "1","MATCH","1019.ON.CA","1014.ON.CA","20","18","0.1","0.9","1","0.2","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.95, doPsib="missing", consensusMethod=1)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  'x' must be atomic 
    Rejected :  amUnique(amdataExample5, cutHeight=0.95, doPsib="missing", consensusMethod=1)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.95, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1002.ON.CA","1002.ON.CA","20","19","0.05","0.95","0.152587890625","","382","384","230","236","155","159","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "1","MATCH","1002.ON.CA","1010.ON.CA","20","19","0.05","0.95","","0.65","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "1","MATCH","1002.ON.CA","1019.ON.CA","20","19","0.05","0.95","","0.65","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "1","MATCH","1002.ON.CA","1006.ON.CA","20","19","0.05","0.95","","0.6","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1002.ON.CA","1007.ON.CA","20","19","0.05","0.95","","0.6","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1002.ON.CA","1017.ON.CA","20","19","0.05","0.95","","0.6","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "1","MATCH","1002.ON.CA","1001.ON.CA","20","19","0.05","0.95","","0.55","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "1","MATCH","1002.ON.CA","1011.ON.CA","20","19","0.05","0.95","","0.55","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1002.ON.CA","1012.ON.CA","20","19","0.05","0.95","","0.55","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1002.ON.CA","1020.ON.CA","20","19","0.05","0.95","","0.55","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "1","MATCH","1002.ON.CA","1008.ON.CA","20","19","0.05","0.95","","0.5","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1002.ON.CA","1009.ON.CA","20","19","0.05","0.95","","0.5","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1002.ON.CA","1013.ON.CA","20","19","0.05","0.95","","0.45","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "1","MATCH","1002.ON.CA","1015.ON.CA","20","19","0.05","0.95","","0.45","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "1","MATCH","1002.ON.CA","1018.ON.CA","20","19","0.05","0.95","","0.45","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "1","MATCH","1002.ON.CA","1003.ON.CA","20","19","0.05","0.95","","0.4","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1002.ON.CA","1004.ON.CA","20","19","0.05","0.95","","0.4","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "1","MATCH","1002.ON.CA","1005.ON.CA","20","19","0.05","0.95","","0.4","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1002.ON.CA","1016.ON.CA","20","19","0.05","0.95","","0.4","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "1","MATCH","1002.ON.CA","1014.ON.CA","20","19","0.05","0.95","","0.2","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.95, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1019.ON.CA","1019.ON.CA","20","19","0.05","0.95","0.244140625","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "1","MATCH","1019.ON.CA","1002.ON.CA","20","19","0.05","0.95","","0.65","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "1","MATCH","1019.ON.CA","1020.ON.CA","20","19","0.05","0.95","","0.65","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "1","MATCH","1019.ON.CA","1011.ON.CA","20","19","0.05","0.95","","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1019.ON.CA","1012.ON.CA","20","19","0.05","0.95","","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1019.ON.CA","1015.ON.CA","20","19","0.05","0.95","","0.6","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "1","MATCH","1019.ON.CA","1017.ON.CA","20","19","0.05","0.95","","0.6","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "1","MATCH","1019.ON.CA","1006.ON.CA","20","19","0.05","0.95","","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1019.ON.CA","1007.ON.CA","20","19","0.05","0.95","","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1019.ON.CA","1008.ON.CA","20","19","0.05","0.95","","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1009.ON.CA","20","19","0.05","0.95","","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1003.ON.CA","20","19","0.05","0.95","","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1019.ON.CA","1005.ON.CA","20","19","0.05","0.95","","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1019.ON.CA","1010.ON.CA","20","19","0.05","0.95","","0.5","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "1","MATCH","1019.ON.CA","1016.ON.CA","20","19","0.05","0.95","","0.5","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "1","MATCH","1019.ON.CA","1018.ON.CA","20","19","0.05","0.95","","0.5","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "1","MATCH","1019.ON.CA","1013.ON.CA","20","19","0.05","0.95","","0.45","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "1","MATCH","1019.ON.CA","1001.ON.CA","20","19","0.05","0.95","","0.4","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1004.ON.CA","20","19","0.05","0.95","","0.4","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "1","MATCH","1019.ON.CA","1014.ON.CA","20","19","0.05","0.95","","0.2","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.95, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1019.ON.CA","1019.ON.CA","20","19","0.05","0.95","0.244140625","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "1","MATCH","1019.ON.CA","1002.ON.CA","20","19","0.05","0.95","","0.65","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "1","MATCH","1019.ON.CA","1020.ON.CA","20","19","0.05","0.95","","0.65","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "1","MATCH","1019.ON.CA","1011.ON.CA","20","19","0.05","0.95","","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1019.ON.CA","1012.ON.CA","20","19","0.05","0.95","","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1019.ON.CA","1015.ON.CA","20","19","0.05","0.95","","0.6","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "1","MATCH","1019.ON.CA","1017.ON.CA","20","19","0.05","0.95","","0.6","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "1","MATCH","1019.ON.CA","1006.ON.CA","20","19","0.05","0.95","","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1019.ON.CA","1007.ON.CA","20","19","0.05","0.95","","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1019.ON.CA","1008.ON.CA","20","19","0.05","0.95","","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1009.ON.CA","20","19","0.05","0.95","","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1003.ON.CA","20","19","0.05","0.95","","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1019.ON.CA","1005.ON.CA","20","19","0.05","0.95","","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1019.ON.CA","1010.ON.CA","20","19","0.05","0.95","","0.5","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "1","MATCH","1019.ON.CA","1016.ON.CA","20","19","0.05","0.95","","0.5","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "1","MATCH","1019.ON.CA","1018.ON.CA","20","19","0.05","0.95","","0.5","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "1","MATCH","1019.ON.CA","1013.ON.CA","20","19","0.05","0.95","","0.45","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "1","MATCH","1019.ON.CA","1001.ON.CA","20","19","0.05","0.95","","0.4","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1004.ON.CA","20","19","0.05","0.95","","0.4","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "1","MATCH","1019.ON.CA","1014.ON.CA","20","19","0.05","0.95","","0.2","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.95, doPsib="all", consensusMethod=1)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  'x' must be atomic 
    Rejected :  amUnique(amdataExample5, cutHeight=0.95, doPsib="all", consensusMethod=1)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.95, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1002.ON.CA","1002.ON.CA","20","19","0.05","0.95","0.152587890625","","382","384","230","236","155","159","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "1","MATCH","1002.ON.CA","1010.ON.CA","20","19","0.05","0.95","0.625","0.65","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "1","MATCH","1002.ON.CA","1019.ON.CA","20","19","0.05","0.95","0.625","0.65","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "1","MATCH","1002.ON.CA","1006.ON.CA","20","19","0.05","0.95","0.244140625","0.6","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1002.ON.CA","1007.ON.CA","20","19","0.05","0.95","0.244140625","0.6","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1002.ON.CA","1017.ON.CA","20","19","0.05","0.95","1","0.6","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "1","MATCH","1002.ON.CA","1001.ON.CA","20","19","0.05","0.95","0.390625","0.55","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "1","MATCH","1002.ON.CA","1011.ON.CA","20","19","0.05","0.95","0.390625","0.55","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1002.ON.CA","1012.ON.CA","20","19","0.05","0.95","0.390625","0.55","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1002.ON.CA","1020.ON.CA","20","19","0.05","0.95","0.625","0.55","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "1","MATCH","1002.ON.CA","1008.ON.CA","20","19","0.05","0.95","1","0.5","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1002.ON.CA","1009.ON.CA","20","19","0.05","0.95","1","0.5","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1002.ON.CA","1013.ON.CA","20","19","0.05","0.95","0.625","0.45","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "1","MATCH","1002.ON.CA","1015.ON.CA","20","19","0.05","0.95","1","0.45","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "1","MATCH","1002.ON.CA","1018.ON.CA","20","19","0.05","0.95","1","0.45","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "1","MATCH","1002.ON.CA","1003.ON.CA","20","19","0.05","0.95","1","0.4","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1002.ON.CA","1004.ON.CA","20","19","0.05","0.95","0.625","0.4","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "1","MATCH","1002.ON.CA","1005.ON.CA","20","19","0.05","0.95","1","0.4","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1002.ON.CA","1016.ON.CA","20","19","0.05","0.95","0.625","0.4","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "1","MATCH","1002.ON.CA","1014.ON.CA","20","19","0.05","0.95","1","0.2","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.95, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1019.ON.CA","1019.ON.CA","20","19","0.05","0.95","0.244140625","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "1","MATCH","1019.ON.CA","1002.ON.CA","20","19","0.05","0.95","0.625","0.65","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "1","MATCH","1019.ON.CA","1020.ON.CA","20","19","0.05","0.95","0.390625","0.65","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "1","MATCH","1019.ON.CA","1011.ON.CA","20","19","0.05","0.95","0.625","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1019.ON.CA","1012.ON.CA","20","19","0.05","0.95","0.625","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1019.ON.CA","1015.ON.CA","20","19","0.05","0.95","1","0.6","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "1","MATCH","1019.ON.CA","1017.ON.CA","20","19","0.05","0.95","0.625","0.6","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "1","MATCH","1019.ON.CA","1006.ON.CA","20","19","0.05","0.95","0.390625","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1019.ON.CA","1007.ON.CA","20","19","0.05","0.95","0.390625","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1019.ON.CA","1008.ON.CA","20","19","0.05","0.95","0.625","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1009.ON.CA","20","19","0.05","0.95","0.625","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1003.ON.CA","20","19","0.05","0.95","1","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1019.ON.CA","1005.ON.CA","20","19","0.05","0.95","1","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1019.ON.CA","1010.ON.CA","20","19","0.05","0.95","0.625","0.5","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "1","MATCH","1019.ON.CA","1016.ON.CA","20","19","0.05","0.95","0.625","0.5","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "1","MATCH","1019.ON.CA","1018.ON.CA","20","19","0.05","0.95","0.625","0.5","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "1","MATCH","1019.ON.CA","1013.ON.CA","20","19","0.05","0.95","0.625","0.45","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "1","MATCH","1019.ON.CA","1001.ON.CA","20","19","0.05","0.95","0.625","0.4","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1004.ON.CA","20","19","0.05","0.95","0.625","0.4","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "1","MATCH","1019.ON.CA","1014.ON.CA","20","19","0.05","0.95","1","0.2","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.95, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1019.ON.CA","1019.ON.CA","20","19","0.05","0.95","0.244140625","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "1","MATCH","1019.ON.CA","1002.ON.CA","20","19","0.05","0.95","0.625","0.65","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "1","MATCH","1019.ON.CA","1020.ON.CA","20","19","0.05","0.95","0.390625","0.65","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "1","MATCH","1019.ON.CA","1011.ON.CA","20","19","0.05","0.95","0.625","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1019.ON.CA","1012.ON.CA","20","19","0.05","0.95","0.625","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1019.ON.CA","1015.ON.CA","20","19","0.05","0.95","1","0.6","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "1","MATCH","1019.ON.CA","1017.ON.CA","20","19","0.05","0.95","0.625","0.6","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "1","MATCH","1019.ON.CA","1006.ON.CA","20","19","0.05","0.95","0.390625","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1019.ON.CA","1007.ON.CA","20","19","0.05","0.95","0.390625","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1019.ON.CA","1008.ON.CA","20","19","0.05","0.95","0.625","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1009.ON.CA","20","19","0.05","0.95","0.625","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1003.ON.CA","20","19","0.05","0.95","1","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1019.ON.CA","1005.ON.CA","20","19","0.05","0.95","1","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1019.ON.CA","1010.ON.CA","20","19","0.05","0.95","0.625","0.5","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "1","MATCH","1019.ON.CA","1016.ON.CA","20","19","0.05","0.95","0.625","0.5","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "1","MATCH","1019.ON.CA","1018.ON.CA","20","19","0.05","0.95","0.625","0.5","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "1","MATCH","1019.ON.CA","1013.ON.CA","20","19","0.05","0.95","0.625","0.45","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "1","MATCH","1019.ON.CA","1001.ON.CA","20","19","0.05","0.95","0.625","0.4","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1004.ON.CA","20","19","0.05","0.95","0.625","0.4","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "1","MATCH","1019.ON.CA","1014.ON.CA","20","19","0.05","0.95","1","0.2","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.99, doPsib="missing", consensusMethod=1)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  'x' must be atomic 
    Rejected :  amUnique(amdataExample5, cutHeight=0.99, doPsib="missing", consensusMethod=1)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.99, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1002.ON.CA","1002.ON.CA","20","19.8","0.01","0.99","0.152587890625","","382","384","230","236","155","159","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "1","MATCH","1002.ON.CA","1010.ON.CA","20","19.8","0.01","0.99","","0.65","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "1","MATCH","1002.ON.CA","1019.ON.CA","20","19.8","0.01","0.99","","0.65","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "1","MATCH","1002.ON.CA","1006.ON.CA","20","19.8","0.01","0.99","","0.6","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1002.ON.CA","1007.ON.CA","20","19.8","0.01","0.99","","0.6","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1002.ON.CA","1017.ON.CA","20","19.8","0.01","0.99","","0.6","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "1","MATCH","1002.ON.CA","1001.ON.CA","20","19.8","0.01","0.99","","0.55","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "1","MATCH","1002.ON.CA","1011.ON.CA","20","19.8","0.01","0.99","","0.55","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1002.ON.CA","1012.ON.CA","20","19.8","0.01","0.99","","0.55","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1002.ON.CA","1020.ON.CA","20","19.8","0.01","0.99","","0.55","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "1","MATCH","1002.ON.CA","1008.ON.CA","20","19.8","0.01","0.99","","0.5","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1002.ON.CA","1009.ON.CA","20","19.8","0.01","0.99","","0.5","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1002.ON.CA","1013.ON.CA","20","19.8","0.01","0.99","","0.45","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "1","MATCH","1002.ON.CA","1015.ON.CA","20","19.8","0.01","0.99","","0.45","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "1","MATCH","1002.ON.CA","1018.ON.CA","20","19.8","0.01","0.99","","0.45","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "1","MATCH","1002.ON.CA","1003.ON.CA","20","19.8","0.01","0.99","","0.4","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1002.ON.CA","1004.ON.CA","20","19.8","0.01","0.99","","0.4","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "1","MATCH","1002.ON.CA","1005.ON.CA","20","19.8","0.01","0.99","","0.4","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1002.ON.CA","1016.ON.CA","20","19.8","0.01","0.99","","0.4","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "1","MATCH","1002.ON.CA","1014.ON.CA","20","19.8","0.01","0.99","","0.2","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.99, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1019.ON.CA","1019.ON.CA","20","19.8","0.01","0.99","0.244140625","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "1","MATCH","1019.ON.CA","1002.ON.CA","20","19.8","0.01","0.99","","0.65","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "1","MATCH","1019.ON.CA","1020.ON.CA","20","19.8","0.01","0.99","","0.65","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "1","MATCH","1019.ON.CA","1011.ON.CA","20","19.8","0.01","0.99","","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1019.ON.CA","1012.ON.CA","20","19.8","0.01","0.99","","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1019.ON.CA","1015.ON.CA","20","19.8","0.01","0.99","","0.6","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "1","MATCH","1019.ON.CA","1017.ON.CA","20","19.8","0.01","0.99","","0.6","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "1","MATCH","1019.ON.CA","1006.ON.CA","20","19.8","0.01","0.99","","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1019.ON.CA","1007.ON.CA","20","19.8","0.01","0.99","","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1019.ON.CA","1008.ON.CA","20","19.8","0.01","0.99","","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1009.ON.CA","20","19.8","0.01","0.99","","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1003.ON.CA","20","19.8","0.01","0.99","","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1019.ON.CA","1005.ON.CA","20","19.8","0.01","0.99","","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1019.ON.CA","1010.ON.CA","20","19.8","0.01","0.99","","0.5","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "1","MATCH","1019.ON.CA","1016.ON.CA","20","19.8","0.01","0.99","","0.5","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "1","MATCH","1019.ON.CA","1018.ON.CA","20","19.8","0.01","0.99","","0.5","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "1","MATCH","1019.ON.CA","1013.ON.CA","20","19.8","0.01","0.99","","0.45","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "1","MATCH","1019.ON.CA","1001.ON.CA","20","19.8","0.01","0.99","","0.4","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1004.ON.CA","20","19.8","0.01","0.99","","0.4","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "1","MATCH","1019.ON.CA","1014.ON.CA","20","19.8","0.01","0.99","","0.2","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.99, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1019.ON.CA","1019.ON.CA","20","19.8","0.01","0.99","0.244140625","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "1","MATCH","1019.ON.CA","1002.ON.CA","20","19.8","0.01","0.99","","0.65","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "1","MATCH","1019.ON.CA","1020.ON.CA","20","19.8","0.01","0.99","","0.65","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "1","MATCH","1019.ON.CA","1011.ON.CA","20","19.8","0.01","0.99","","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1019.ON.CA","1012.ON.CA","20","19.8","0.01","0.99","","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1019.ON.CA","1015.ON.CA","20","19.8","0.01","0.99","","0.6","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "1","MATCH","1019.ON.CA","1017.ON.CA","20","19.8","0.01","0.99","","0.6","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "1","MATCH","1019.ON.CA","1006.ON.CA","20","19.8","0.01","0.99","","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1019.ON.CA","1007.ON.CA","20","19.8","0.01","0.99","","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1019.ON.CA","1008.ON.CA","20","19.8","0.01","0.99","","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1009.ON.CA","20","19.8","0.01","0.99","","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1003.ON.CA","20","19.8","0.01","0.99","","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1019.ON.CA","1005.ON.CA","20","19.8","0.01","0.99","","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1019.ON.CA","1010.ON.CA","20","19.8","0.01","0.99","","0.5","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "1","MATCH","1019.ON.CA","1016.ON.CA","20","19.8","0.01","0.99","","0.5","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "1","MATCH","1019.ON.CA","1018.ON.CA","20","19.8","0.01","0.99","","0.5","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "1","MATCH","1019.ON.CA","1013.ON.CA","20","19.8","0.01","0.99","","0.45","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "1","MATCH","1019.ON.CA","1001.ON.CA","20","19.8","0.01","0.99","","0.4","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1004.ON.CA","20","19.8","0.01","0.99","","0.4","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "1","MATCH","1019.ON.CA","1014.ON.CA","20","19.8","0.01","0.99","","0.2","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.99, doPsib="all", consensusMethod=1)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  'x' must be atomic 
    Rejected :  amUnique(amdataExample5, cutHeight=0.99, doPsib="all", consensusMethod=1)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.99, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1002.ON.CA","1002.ON.CA","20","19.8","0.01","0.99","0.152587890625","","382","384","230","236","155","159","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "1","MATCH","1002.ON.CA","1010.ON.CA","20","19.8","0.01","0.99","0.625","0.65","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "1","MATCH","1002.ON.CA","1019.ON.CA","20","19.8","0.01","0.99","0.625","0.65","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "1","MATCH","1002.ON.CA","1006.ON.CA","20","19.8","0.01","0.99","0.244140625","0.6","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1002.ON.CA","1007.ON.CA","20","19.8","0.01","0.99","0.244140625","0.6","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1002.ON.CA","1017.ON.CA","20","19.8","0.01","0.99","1","0.6","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "1","MATCH","1002.ON.CA","1001.ON.CA","20","19.8","0.01","0.99","0.390625","0.55","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "1","MATCH","1002.ON.CA","1011.ON.CA","20","19.8","0.01","0.99","0.390625","0.55","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1002.ON.CA","1012.ON.CA","20","19.8","0.01","0.99","0.390625","0.55","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1002.ON.CA","1020.ON.CA","20","19.8","0.01","0.99","0.625","0.55","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "1","MATCH","1002.ON.CA","1008.ON.CA","20","19.8","0.01","0.99","1","0.5","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1002.ON.CA","1009.ON.CA","20","19.8","0.01","0.99","1","0.5","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1002.ON.CA","1013.ON.CA","20","19.8","0.01","0.99","0.625","0.45","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "1","MATCH","1002.ON.CA","1015.ON.CA","20","19.8","0.01","0.99","1","0.45","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "1","MATCH","1002.ON.CA","1018.ON.CA","20","19.8","0.01","0.99","1","0.45","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "1","MATCH","1002.ON.CA","1003.ON.CA","20","19.8","0.01","0.99","1","0.4","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1002.ON.CA","1004.ON.CA","20","19.8","0.01","0.99","0.625","0.4","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "1","MATCH","1002.ON.CA","1005.ON.CA","20","19.8","0.01","0.99","1","0.4","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1002.ON.CA","1016.ON.CA","20","19.8","0.01","0.99","0.625","0.4","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "1","MATCH","1002.ON.CA","1014.ON.CA","20","19.8","0.01","0.99","1","0.2","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.99, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1019.ON.CA","1019.ON.CA","20","19.8","0.01","0.99","0.244140625","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "1","MATCH","1019.ON.CA","1002.ON.CA","20","19.8","0.01","0.99","0.625","0.65","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "1","MATCH","1019.ON.CA","1020.ON.CA","20","19.8","0.01","0.99","0.390625","0.65","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "1","MATCH","1019.ON.CA","1011.ON.CA","20","19.8","0.01","0.99","0.625","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1019.ON.CA","1012.ON.CA","20","19.8","0.01","0.99","0.625","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1019.ON.CA","1015.ON.CA","20","19.8","0.01","0.99","1","0.6","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "1","MATCH","1019.ON.CA","1017.ON.CA","20","19.8","0.01","0.99","0.625","0.6","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "1","MATCH","1019.ON.CA","1006.ON.CA","20","19.8","0.01","0.99","0.390625","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1019.ON.CA","1007.ON.CA","20","19.8","0.01","0.99","0.390625","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1019.ON.CA","1008.ON.CA","20","19.8","0.01","0.99","0.625","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1009.ON.CA","20","19.8","0.01","0.99","0.625","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1003.ON.CA","20","19.8","0.01","0.99","1","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1019.ON.CA","1005.ON.CA","20","19.8","0.01","0.99","1","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1019.ON.CA","1010.ON.CA","20","19.8","0.01","0.99","0.625","0.5","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "1","MATCH","1019.ON.CA","1016.ON.CA","20","19.8","0.01","0.99","0.625","0.5","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "1","MATCH","1019.ON.CA","1018.ON.CA","20","19.8","0.01","0.99","0.625","0.5","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "1","MATCH","1019.ON.CA","1013.ON.CA","20","19.8","0.01","0.99","0.625","0.45","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "1","MATCH","1019.ON.CA","1001.ON.CA","20","19.8","0.01","0.99","0.625","0.4","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1004.ON.CA","20","19.8","0.01","0.99","0.625","0.4","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "1","MATCH","1019.ON.CA","1014.ON.CA","20","19.8","0.01","0.99","1","0.2","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=0.99, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1019.ON.CA","1019.ON.CA","20","19.8","0.01","0.99","0.244140625","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "1","MATCH","1019.ON.CA","1002.ON.CA","20","19.8","0.01","0.99","0.625","0.65","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "1","MATCH","1019.ON.CA","1020.ON.CA","20","19.8","0.01","0.99","0.390625","0.65","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "1","MATCH","1019.ON.CA","1011.ON.CA","20","19.8","0.01","0.99","0.625","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1019.ON.CA","1012.ON.CA","20","19.8","0.01","0.99","0.625","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1019.ON.CA","1015.ON.CA","20","19.8","0.01","0.99","1","0.6","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "1","MATCH","1019.ON.CA","1017.ON.CA","20","19.8","0.01","0.99","0.625","0.6","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "1","MATCH","1019.ON.CA","1006.ON.CA","20","19.8","0.01","0.99","0.390625","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1019.ON.CA","1007.ON.CA","20","19.8","0.01","0.99","0.390625","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1019.ON.CA","1008.ON.CA","20","19.8","0.01","0.99","0.625","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1009.ON.CA","20","19.8","0.01","0.99","0.625","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1003.ON.CA","20","19.8","0.01","0.99","1","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1019.ON.CA","1005.ON.CA","20","19.8","0.01","0.99","1","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1019.ON.CA","1010.ON.CA","20","19.8","0.01","0.99","0.625","0.5","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "1","MATCH","1019.ON.CA","1016.ON.CA","20","19.8","0.01","0.99","0.625","0.5","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "1","MATCH","1019.ON.CA","1018.ON.CA","20","19.8","0.01","0.99","0.625","0.5","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "1","MATCH","1019.ON.CA","1013.ON.CA","20","19.8","0.01","0.99","0.625","0.45","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "1","MATCH","1019.ON.CA","1001.ON.CA","20","19.8","0.01","0.99","0.625","0.4","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1004.ON.CA","20","19.8","0.01","0.99","0.625","0.4","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "1","MATCH","1019.ON.CA","1014.ON.CA","20","19.8","0.01","0.99","1","0.2","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=1, doPsib="missing", consensusMethod=1)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  'x' must be atomic 
    Rejected :  amUnique(amdataExample5, cutHeight=1, doPsib="missing", consensusMethod=1)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=1, doPsib="missing", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1002.ON.CA","1002.ON.CA","20","20","0","1","0.152587890625","","382","384","230","236","155","159","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "1","MATCH","1002.ON.CA","1010.ON.CA","20","20","0","1","","0.65","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "1","MATCH","1002.ON.CA","1019.ON.CA","20","20","0","1","","0.65","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "1","MATCH","1002.ON.CA","1006.ON.CA","20","20","0","1","","0.6","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1002.ON.CA","1007.ON.CA","20","20","0","1","","0.6","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1002.ON.CA","1017.ON.CA","20","20","0","1","","0.6","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "1","MATCH","1002.ON.CA","1001.ON.CA","20","20","0","1","","0.55","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "1","MATCH","1002.ON.CA","1011.ON.CA","20","20","0","1","","0.55","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1002.ON.CA","1012.ON.CA","20","20","0","1","","0.55","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1002.ON.CA","1020.ON.CA","20","20","0","1","","0.55","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "1","MATCH","1002.ON.CA","1008.ON.CA","20","20","0","1","","0.5","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1002.ON.CA","1009.ON.CA","20","20","0","1","","0.5","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1002.ON.CA","1013.ON.CA","20","20","0","1","","0.45","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "1","MATCH","1002.ON.CA","1015.ON.CA","20","20","0","1","","0.45","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "1","MATCH","1002.ON.CA","1018.ON.CA","20","20","0","1","","0.45","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "1","MATCH","1002.ON.CA","1003.ON.CA","20","20","0","1","","0.4","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1002.ON.CA","1004.ON.CA","20","20","0","1","","0.4","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "1","MATCH","1002.ON.CA","1005.ON.CA","20","20","0","1","","0.4","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1002.ON.CA","1016.ON.CA","20","20","0","1","","0.4","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "1","MATCH","1002.ON.CA","1014.ON.CA","20","20","0","1","","0.2","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=1, doPsib="missing", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1019.ON.CA","1019.ON.CA","20","20","0","1","0.244140625","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "1","MATCH","1019.ON.CA","1002.ON.CA","20","20","0","1","","0.65","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "1","MATCH","1019.ON.CA","1020.ON.CA","20","20","0","1","","0.65","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "1","MATCH","1019.ON.CA","1011.ON.CA","20","20","0","1","","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1019.ON.CA","1012.ON.CA","20","20","0","1","","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1019.ON.CA","1015.ON.CA","20","20","0","1","","0.6","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "1","MATCH","1019.ON.CA","1017.ON.CA","20","20","0","1","","0.6","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "1","MATCH","1019.ON.CA","1006.ON.CA","20","20","0","1","","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1019.ON.CA","1007.ON.CA","20","20","0","1","","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1019.ON.CA","1008.ON.CA","20","20","0","1","","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1009.ON.CA","20","20","0","1","","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1003.ON.CA","20","20","0","1","","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1019.ON.CA","1005.ON.CA","20","20","0","1","","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1019.ON.CA","1010.ON.CA","20","20","0","1","","0.5","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "1","MATCH","1019.ON.CA","1016.ON.CA","20","20","0","1","","0.5","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "1","MATCH","1019.ON.CA","1018.ON.CA","20","20","0","1","","0.5","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "1","MATCH","1019.ON.CA","1013.ON.CA","20","20","0","1","","0.45","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "1","MATCH","1019.ON.CA","1001.ON.CA","20","20","0","1","","0.4","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1004.ON.CA","20","20","0","1","","0.4","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "1","MATCH","1019.ON.CA","1014.ON.CA","20","20","0","1","","0.2","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=1, doPsib="missing", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1019.ON.CA","1019.ON.CA","20","20","0","1","0.244140625","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "1","MATCH","1019.ON.CA","1002.ON.CA","20","20","0","1","","0.65","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "1","MATCH","1019.ON.CA","1020.ON.CA","20","20","0","1","","0.65","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "1","MATCH","1019.ON.CA","1011.ON.CA","20","20","0","1","","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1019.ON.CA","1012.ON.CA","20","20","0","1","","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1019.ON.CA","1015.ON.CA","20","20","0","1","","0.6","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "1","MATCH","1019.ON.CA","1017.ON.CA","20","20","0","1","","0.6","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "1","MATCH","1019.ON.CA","1006.ON.CA","20","20","0","1","","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1019.ON.CA","1007.ON.CA","20","20","0","1","","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1019.ON.CA","1008.ON.CA","20","20","0","1","","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1009.ON.CA","20","20","0","1","","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1003.ON.CA","20","20","0","1","","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1019.ON.CA","1005.ON.CA","20","20","0","1","","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1019.ON.CA","1010.ON.CA","20","20","0","1","","0.5","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "1","MATCH","1019.ON.CA","1016.ON.CA","20","20","0","1","","0.5","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "1","MATCH","1019.ON.CA","1018.ON.CA","20","20","0","1","","0.5","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "1","MATCH","1019.ON.CA","1013.ON.CA","20","20","0","1","","0.45","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "1","MATCH","1019.ON.CA","1001.ON.CA","20","20","0","1","","0.4","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1004.ON.CA","20","20","0","1","","0.4","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "1","MATCH","1019.ON.CA","1014.ON.CA","20","20","0","1","","0.2","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=1, doPsib="all", consensusMethod=1)

Code
  cat("\n  No amUnique object generated:", ret)
Output

    No amUnique object generated: 
    Error    :  'x' must be atomic 
    Rejected :  amUnique(amdataExample5, cutHeight=1, doPsib="all", consensusMethod=1)

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=1, doPsib="all", consensusMethod=2)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1002.ON.CA","1002.ON.CA","20","20","0","1","0.152587890625","","382","384","230","236","155","159","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "1","MATCH","1002.ON.CA","1010.ON.CA","20","20","0","1","0.625","0.65","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "1","MATCH","1002.ON.CA","1019.ON.CA","20","20","0","1","0.625","0.65","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "1","MATCH","1002.ON.CA","1006.ON.CA","20","20","0","1","0.244140625","0.6","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1002.ON.CA","1007.ON.CA","20","20","0","1","0.244140625","0.6","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1002.ON.CA","1017.ON.CA","20","20","0","1","1","0.6","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "1","MATCH","1002.ON.CA","1001.ON.CA","20","20","0","1","0.390625","0.55","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "1","MATCH","1002.ON.CA","1011.ON.CA","20","20","0","1","0.390625","0.55","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1002.ON.CA","1012.ON.CA","20","20","0","1","0.390625","0.55","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1002.ON.CA","1020.ON.CA","20","20","0","1","0.625","0.55","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "1","MATCH","1002.ON.CA","1008.ON.CA","20","20","0","1","1","0.5","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1002.ON.CA","1009.ON.CA","20","20","0","1","1","0.5","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1002.ON.CA","1013.ON.CA","20","20","0","1","0.625","0.45","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "1","MATCH","1002.ON.CA","1015.ON.CA","20","20","0","1","1","0.45","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "1","MATCH","1002.ON.CA","1018.ON.CA","20","20","0","1","1","0.45","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "1","MATCH","1002.ON.CA","1003.ON.CA","20","20","0","1","1","0.4","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1002.ON.CA","1004.ON.CA","20","20","0","1","0.625","0.4","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "1","MATCH","1002.ON.CA","1005.ON.CA","20","20","0","1","1","0.4","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1002.ON.CA","1016.ON.CA","20","20","0","1","0.625","0.4","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "1","MATCH","1002.ON.CA","1014.ON.CA","20","20","0","1","1","0.2","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=1, doPsib="all", consensusMethod=3)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1019.ON.CA","1019.ON.CA","20","20","0","1","0.244140625","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "1","MATCH","1019.ON.CA","1002.ON.CA","20","20","0","1","0.625","0.65","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "1","MATCH","1019.ON.CA","1020.ON.CA","20","20","0","1","0.390625","0.65","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "1","MATCH","1019.ON.CA","1011.ON.CA","20","20","0","1","0.625","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1019.ON.CA","1012.ON.CA","20","20","0","1","0.625","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1019.ON.CA","1015.ON.CA","20","20","0","1","1","0.6","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "1","MATCH","1019.ON.CA","1017.ON.CA","20","20","0","1","0.625","0.6","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "1","MATCH","1019.ON.CA","1006.ON.CA","20","20","0","1","0.390625","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1019.ON.CA","1007.ON.CA","20","20","0","1","0.390625","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1019.ON.CA","1008.ON.CA","20","20","0","1","0.625","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1009.ON.CA","20","20","0","1","0.625","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1003.ON.CA","20","20","0","1","1","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1019.ON.CA","1005.ON.CA","20","20","0","1","1","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1019.ON.CA","1010.ON.CA","20","20","0","1","0.625","0.5","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "1","MATCH","1019.ON.CA","1016.ON.CA","20","20","0","1","0.625","0.5","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "1","MATCH","1019.ON.CA","1018.ON.CA","20","20","0","1","0.625","0.5","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "1","MATCH","1019.ON.CA","1013.ON.CA","20","20","0","1","0.625","0.45","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "1","MATCH","1019.ON.CA","1001.ON.CA","20","20","0","1","0.625","0.4","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1004.ON.CA","20","20","0","1","0.625","0.4","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "1","MATCH","1019.ON.CA","1014.ON.CA","20","20","0","1","1","0.2","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"

Code
  cat(cmdstr)
Output
  amUnique(amdataExample5, cutHeight=1, doPsib="all", consensusMethod=4)

Code
  amCSV.amUnique(ret, csvFile = stdout(), uniqueOnly = FALSE)
Output
  "uniqueGroup","rowType","uniqueIndex","matchIndex","nUniqueGroup","alleleMismatch","matchThreshold","cutHeight","Psib","score","LOC1a","LOC1b","LOC2a","LOC2b","LOC3a","LOC3b","LOC4a","LOC4b","LOC5a","LOC5b","LOC6a","LOC6b","LOC7a","LOC7b","LOC8a","LOC8b","LOC9a","LOC9b","LOC10a","LOC10b"
  "1","UNIQUE","1019.ON.CA","1019.ON.CA","20","20","0","1","0.244140625","","382","384","224","230","159","159","193","193","299","299","223","223","202","202","106","118","298","298","166","166"
  "1","MATCH","1019.ON.CA","1002.ON.CA","20","20","0","1","0.625","0.65","382","384","230","236","-99","-99","181","193","299","299","223","223","202","202","118","118","288","296","166","166"
  "1","MATCH","1019.ON.CA","1020.ON.CA","20","20","0","1","0.390625","0.65","382","384","224","230","155","167","185","193","299","299","223","223","202","204","106","106","296","304","166","166"
  "1","MATCH","1019.ON.CA","1011.ON.CA","20","20","0","1","0.625","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1019.ON.CA","1012.ON.CA","20","20","0","1","0.625","0.6","382","384","224","224","-99","-99","193","193","299","299","223","223","210","214","106","112","288","296","166","172"
  "1","MATCH","1019.ON.CA","1015.ON.CA","20","20","0","1","1","0.6","382","382","224","232","-99","-99","193","193","299","299","223","223","210","216","106","106","296","306","166","166"
  "1","MATCH","1019.ON.CA","1017.ON.CA","20","20","0","1","0.625","0.6","382","388","230","230","-99","-99","181","185","285","299","223","223","202","202","106","118","304","304","166","166"
  "1","MATCH","1019.ON.CA","1006.ON.CA","20","20","0","1","0.390625","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1019.ON.CA","1007.ON.CA","20","20","0","1","0.390625","0.55","382","384","224","230","-99","-99","181","193","285","285","223","223","198","202","114","116","288","296","166","166"
  "1","MATCH","1019.ON.CA","1008.ON.CA","20","20","0","1","0.625","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1009.ON.CA","20","20","0","1","0.625","0.55","382","382","224","230","-99","-99","185","193","285","285","223","223","192","202","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1003.ON.CA","20","20","0","1","1","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1019.ON.CA","1005.ON.CA","20","20","0","1","1","0.5","382","382","224","242","-99","-99","185","191","285","299","223","223","192","202","102","118","298","304","166","172"
  "1","MATCH","1019.ON.CA","1010.ON.CA","20","20","0","1","0.625","0.5","382","384","230","244","-99","-99","191","193","299","299","227","227","202","204","118","118","296","296","166","166"
  "1","MATCH","1019.ON.CA","1016.ON.CA","20","20","0","1","0.625","0.5","382","384","224","232","-99","-99","193","193","-99","-99","213","221","210","210","106","112","288","288","166","166"
  "1","MATCH","1019.ON.CA","1018.ON.CA","20","20","0","1","0.625","0.5","384","384","224","230","-99","-99","185","199","285","299","223","223","198","204","116","118","296","296","166","166"
  "1","MATCH","1019.ON.CA","1013.ON.CA","20","20","0","1","0.625","0.45","382","384","232","232","-99","-99","193","193","299","299","213","221","210","210","118","118","296","306","166","172"
  "1","MATCH","1019.ON.CA","1001.ON.CA","20","20","0","1","0.625","0.4","382","384","230","236","-99","-99","185","185","301","301","223","223","192","192","118","118","296","304","166","166"
  "1","MATCH","1019.ON.CA","1004.ON.CA","20","20","0","1","0.625","0.4","382","384","232","236","-99","-99","193","193","299","301","223","223","192","216","102","108","296","304","168","174"
  "1","MATCH","1019.ON.CA","1014.ON.CA","20","20","0","1","1","0.2","384","384","232","238","-99","-99","193","199","299","301","213","213","210","210","102","108","296","296","174","174"