labelRowsParam | R Documentation |
List of default parameters for combinedTable row annotation and removal.
See help(labelRows) or ?labelRows for more details. reduceTableParam loads
parameters for the more automated reduceTable
function
labelRowsParam( useID = FALSE, maxRankX = 3, maxRankY = 3, minScore = 0.5, method = "score", delta = 0.1, maxRTerr = 10, resolveConflicts = FALSE, rtOrder = TRUE, remove = FALSE, balanced = TRUE, brackets_ignore = c("(", "[", "{") ) reduceTableParam( useID = FALSE, maxRankX = 2, maxRankY = 2, minScore = 0.5, maxRTerr = 10, delta = 0.1, rtOrder = TRUE, method = "score", brackets_ignore = c("(", "[", "{") )
useID |
option to annotate identity-matched strings as IDENTITY; default: FALSE |
maxRankX |
maximum rank allowable for X features |
maxRankY |
maximum rank allowable for Y features |
minScore |
minimum score threshold; default: 0.5 |
method |
thresholding method for subgroup detection ("score" or "mzrt"); default: "score" |
delta |
score distance or mz/rt difference tolerances for subgrouping; default: 0.1 |
maxRTerr |
maximum allowable difference between predicted RT (rtProj) & observed RT (rty); default: 10 minutes |
resolveConflicts |
logical. If TRUE, automatically resolves subgroups to 1-1 feature pair alignments |
rtOrder |
logical. If TRUE and resolveConflicts is TRUE, imposes retention order condition on paired alignments |
remove |
option to eliminate rows determined as removable; default: FALSE |
balanced |
option to reduce balanced groups; default: TRUE |
brackets_ignore |
bracket types for ignoring string comparisons |
list of labelRows parameters
labelRows
, metabCombine
,
batchCombine
, reduceTable
lrParams <- labelRowsParam(maxRankX = 2, maxRankY = 2, delta = 0.1, maxRTerr = 0.5)
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