.change_missing	dot-change_missing
.filterCOsExtra	dot-filterCOsExtra
.label_gt	dot-label_gt
bootstrapDist	bootstrapDist
calGeneticDist	calGeneticDist
calGeneticDist,GRanges,missing,ANY,ANY,character-method	calGeneticDist
calGeneticDist,GRanges,missing,ANY,ANY,missing-method	calGeneticDist
calGeneticDist,GRanges,numeric,ANY,ANY,character-method	calGeneticDist
calGeneticDist,GRanges,numeric,ANY,ANY,missing-method	calGeneticDist
calGeneticDist,RangedSummarizedExperiment,missing,ANY,ANY,character-method	calGeneticDist
calGeneticDist,RangedSummarizedExperiment,missing,ANY,ANY,missing-method	calGeneticDist
calGeneticDist,RangedSummarizedExperiment,numeric,ANY,ANY,character-method	calGeneticDist
calGeneticDist,RangedSummarizedExperiment,numeric,ANY,ANY,missing-method	calGeneticDist
coCount	coCount
comapr	comapr
combineHapState	combineHapState
correctGT	correctGT
countBinState	countBinState
countCOs	countCOs
countCOs,GRanges-method	countCOs
countCOs,RangedSummarizedExperiment-method	countCOs
countGT	countGT
fill_fail	fill_fail
filterGT	filterGT
filterGT,GRanges,numeric,numeric-method	filterGT
filterGT,matrix,numeric,numeric-method	filterGT
findDupSamples	findDupSamples
getAFTracks	getAFTracks
getCellAFTrack	getCellAFTrack
getCellCORange	getCellCORange
getCellDPTrack	getCellDPTrack
getDistortedMarkers	getDistortedMarkers
getMeanDPTrack	getMeanDPTrack
getSNPDensityTrack	getSNPDensityTrack
parents_geno	parents_geno
perCellChrQC	perCellChrQC
permuteDist	permuteDist
perSegChrQC	perSegChrQC
plotCount	plotCount
plotCount,GRanges,logical,character-method	plotCount
plotCount,GRanges,logical,missing-method	plotCount
plotCount,GRanges,missing,character-method	plotCount
plotCount,GRanges,missing,missing-method	plotCount
plotCount,RangedSummarizedExperiment,logical,character-method	plotCount
plotCount,RangedSummarizedExperiment,logical,missing-method	plotCount
plotCount,RangedSummarizedExperiment,missing,character-method	plotCount
plotCount,RangedSummarizedExperiment,missing,missing-method	plotCount
plotGeneticDist	plotGeneticDist
plotGTFreq	plotGTFreq
plotWholeGenome	plotWholeGenome
readColMM	readColMM
readHapState	readHapState
snp_geno	snp_geno
snp_geno_gr	snp_geno_gr
twoSamples	twoSamples
