bootstrapDist           bootstrapDist
calGeneticDist          calGeneticDist
coCount                 RangedSummarizedExperiment object containing
                        the crossover counts across samples for the
                        list of SNP marker intervals
comapr                  'comapr' package
combineHapState         combineHapState
correctGT               correctGT
countBinState           countBinState
countCOs                countCOs
countGT                 countGT
filterGT                filterGT
findDupSamples          findDupSamples
getAFTracks             getAFTracks
getCellAFTrack          getCellAFTrack Generates the DataTracks for
                        plotting AF and crossover regions
getCellCORange          getCellCORange
getCellDPTrack          getCellDPTrack Generates the DataTrack for
                        plotting DP of a selected cell
getDistortedMarkers     getDistortedMarkers
getMeanDPTrack          getMeanDPTrack
getSNPDensityTrack      getSNPDensityTrack
parents_geno            Parents' genotype for F1 samples in 'snp_geno'
perCellChrQC            perCellChrQC
perSegChrQC             perSegChrQC
permuteDist             permuteDist
plotCount               plotCount
plotGTFreq              plotGTFreq
plotGeneticDist         plotGeneticDist
plotWholeGenome         Plot cumulative genetic distances across the
                        genome
readColMM               readColMM
readHapState            readHapState
snp_geno                Markers by genotype results for a group of
                        samples
snp_geno_gr             Markers by genotype results for a group of
                        samples
twoSamples              RangedSummarizedExperiment object containing
                        the Viterbi states SNP markers for samples from
                        two groups. 'colData(twoSamples)' contains the
                        sample group factor.
