hapFabia
hapFabia: Identification of very short segments of identity by descent (IBD) characterized by rare variants in large sequencing data

Package index
Search the hapFabia package
Vignettes
Functions
203
Source code
9
Man pages
28
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hapFabia: hapFabia: Identification of very short segments of identity by descent (IBD) characterized by rare variants in large sequencing data
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API

API for hapFabia
hapFabia: Identification of very short segments of identity by descent (IBD) characterized by rare variants in large sequencing data

Global functions
.onLoad Source code
.onUnload Source code
IBDsegment Man page Source code
IBDsegment,ANY-method Man page
IBDsegment,IBDsegment-method Man page
IBDsegment,numeric,numeric,character,numeric,numeric,numeric,num Man page
IBDsegment-class Man page
IBDsegment-method Man page
IBDsegmentLength Man page
IBDsegmentLength,IBDsegment-method Man page
IBDsegmentLength<- Man page
IBDsegmentLength<-,IBDsegment,numeric-method Man page
IBDsegmentList Man page Source code
IBDsegmentList,ANY-method Man page
IBDsegmentList,list,numeric,list-method Man page
IBDsegmentList-class Man page
IBDsegmentList-method Man page
IBDsegmentList2excel Man page
IBDsegmentList2excel,IBDsegmentList,character-method Man page
IBDsegmentList2excel,IBDsegmentList-method Man page
IBDsegmentPos Man page
IBDsegmentPos,IBDsegment-method Man page
IBDsegmentPos<- Man page
IBDsegmentPos<-,IBDsegment,numeric-method Man page
IBDsegments Man page
IBDsegments,IBDsegmentList-method Man page
IBDsegments<- Man page
IBDsegments<-,IBDsegmentList,list-method Man page
ID Man page
ID,IBDsegment-method Man page
ID<- Man page
ID<-,IBDsegment,numeric-method Man page
[ Man page
[,IBDsegmentList,numeric,missing-method Man page
[,IBDsegmentList-method Man page
[<- Man page
[<-,IBDsegmentList,numeric,missing,IBDsegmentList-method Man page
[<-,IBDsegmentList-method Man page
[[ Man page
[[,IBDsegmentList,numeric,missing-method Man page
[[,IBDsegmentList-method Man page
[[<- Man page
[[<-,IBDsegmentList,numeric,missing,IBDsegment-method Man page
[[<-,IBDsegmentList-method Man page
analyzeIBDsegments Man page Source code
bicluster_id Man page
bicluster_id,IBDsegment-method Man page
bicluster_id<- Man page
bicluster_id<-,IBDsegment,numeric-method Man page
chr1ASW1000G Man page
chromosome Man page
chromosome,IBDsegment-method Man page
chromosome<- Man page
chromosome<-,IBDsegment,character-method Man page
compareIBDsegmentLists Man page
compareIBDsegmentLists,IBDsegmentList,ANY,character,ANY,ANY,nume Man page
compareIBDsegmentLists,IBDsegmentList-method Man page
coreClusterIndividuals Man page
coreClusterIndividuals,IBDsegment-method Man page
coreClusterIndividuals<- Man page
coreClusterIndividuals<-,IBDsegment,vector-method Man page
extractIBDsegments Man page
extractIBDsegments,Factorization,list,data.frame,character,matri Man page
extractIBDsegments,Factorization-method Man page
findDenseRegions Man page Source code
hapFabia Man page Source code
hapFabiaVersion Man page Source code
hapRes Man page
histL Man page
histL,Factorization,numeric,ANY,ANY,numeric,numeric-method Man page
histL,Factorization-method Man page
idIndividuals Man page
idIndividuals,IBDsegment-method Man page
idIndividuals<- Man page
idIndividuals<-,IBDsegment,vector-method Man page
identifyDuplicates Man page Source code
individualPerTagSNV Man page
individualPerTagSNV,IBDsegment-method Man page
individualPerTagSNV<- Man page
individualPerTagSNV<-,IBDsegment,vector-method Man page
individuals Man page
individuals,IBDsegment-method Man page
individuals<- Man page
individuals<-,IBDsegment,vector-method Man page
iterateIntervals Man page Source code
labelIndividuals Man page
labelIndividuals,IBDsegment-method Man page
labelIndividuals<- Man page
labelIndividuals<-,IBDsegment,vector-method Man page
lengthList Man page
lengthList,IBDsegmentList-method Man page
lengthList<- Man page
lengthList<-,IBDsegmentList,numeric-method Man page
makePipelineFile Man page Source code
matrixPlot Man page Source code
mergeIBDsegmentLists Man page
mergeIBDsegmentLists,IBDsegmentList,ANY,vector-method Man page
mergeIBDsegmentLists,IBDsegmentList-method Man page
mergedIBDsegmentList Man page
numberIndividuals Man page
numberIndividuals,IBDsegment-method Man page
numberIndividuals<- Man page
numberIndividuals<-,IBDsegment,numeric-method Man page
numbertagSNVs Man page
numbertagSNVs,IBDsegment-method Man page
numbertagSNVs<- Man page
numbertagSNVs<-,IBDsegment,numeric-method Man page
platformIndividuals Man page
platformIndividuals,IBDsegment-method Man page
platformIndividuals<- Man page
platformIndividuals<-,IBDsegment,vector-method Man page
plot,IBDsegment,missing-method Man page
plot,IBDsegment-method Man page
plot,IBDsegmentList,missing-method Man page
plot,IBDsegmentList-method Man page
plotIBDsegment Man page Source code
plotL Man page
plotL,Factorization,numeric,ANY,ANY,character,numeric,numeric,ch Man page
plotL,Factorization-method Man page
plotLarger Man page
plotLarger,IBDsegment,character,numeric-method Man page
plotLarger,IBDsegment,missing-method Man page
plotLarger,IBDsegment-method Man page
populationIndividuals Man page
populationIndividuals,IBDsegment-method Man page
populationIndividuals<- Man page
populationIndividuals<-,IBDsegment,vector-method Man page
res Man page
setAnnotation Man page
setAnnotation,IBDsegmentList,character-method Man page
setAnnotation,IBDsegmentList-method Man page
setStatistics Man page
setStatistics,IBDsegmentList-method Man page
sim Man page Source code
simu Man page
simulateIBDsegments Man page Source code
simulateIBDsegmentsFabia Man page Source code
split_sparse_matrix Man page Source code
statistics Man page
statistics,IBDsegmentList-method Man page
statistics<- Man page
statistics<-,IBDsegmentList,list-method Man page
summary,IBDsegment-method Man page
summary,IBDsegmentList-method Man page
tagSNVAlleles Man page
tagSNVAlleles,IBDsegment-method Man page
tagSNVAlleles<- Man page
tagSNVAlleles<-,IBDsegment,vector-method Man page
tagSNVAnno Man page
tagSNVAnno,IBDsegment-method Man page
tagSNVAnno<- Man page
tagSNVAnno<-,IBDsegment,vector-method Man page
tagSNVChange Man page
tagSNVChange,IBDsegment-method Man page
tagSNVChange<- Man page
tagSNVChange<-,IBDsegment,vector-method Man page
tagSNVFreq Man page
tagSNVFreq,IBDsegment-method Man page
tagSNVFreq<- Man page
tagSNVFreq<-,IBDsegment,vector-method Man page
tagSNVGroupFreq Man page
tagSNVGroupFreq,IBDsegment-method Man page
tagSNVGroupFreq<- Man page
tagSNVGroupFreq<-,IBDsegment,vector-method Man page
tagSNVNames Man page
tagSNVNames,IBDsegment-method Man page
tagSNVNames<- Man page
tagSNVNames<-,IBDsegment,vector-method Man page
tagSNVPositions Man page
tagSNVPositions,IBDsegment-method Man page
tagSNVPositions<- Man page
tagSNVPositions<-,IBDsegment,vector-method Man page
tagSNVs Man page
tagSNVs,IBDsegment-method Man page
tagSNVs<- Man page
tagSNVs<-,IBDsegment,vector-method Man page
tagSNVsPerIndividual Man page
tagSNVsPerIndividual,IBDsegment-method Man page
tagSNVsPerIndividual<- Man page
tagSNVsPerIndividual<-,IBDsegment,vector-method Man page
toolsFactorizationClass Man page
topLZ Man page
topLZ,Factorization,numeric,character,logical,ANY,ANY-method Man page
topLZ,Factorization,numeric,character,logical,ANY-method Man page
topLZ,Factorization,numeric,character,logical-method Man page
topLZ,Factorization-method Man page
vcftoFABIA Man page Source code
hapFabia documentation built on Nov. 8, 2020, 5:17 p.m.

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