TitanCNA-package	TitanCNA-package
computeSDbwIndex	computeSDbwIndex
convergeParams	TitanCNA-dataset
correctIntegerCN	correctCN
correctReadDepth	correctReadDepth
data	TitanCNA-dataset
EMresults	TitanCNA-dataset
filterData	filterData
getHaplotypesFromVCF	haplotype
getPositionOverlap	getPositionOverlap
loadAlleleCounts	loadAlleleCounts
loadBXcountsFromBEDDir	haplotype
loadDefaultParameters	loadDefaultParameters
loadHaplotypeAlleleCounts	haplotype
outputModelParameters	TitanCNA-output
outputTitanResults	TitanCNA-output
outputTitanSegments	TitanCNA-output
plotAllelicRatio	TitanCNA-plotting
plotClonalFrequency	TitanCNA-plotting
plotCNlogRByChr	TitanCNA-plotting
plotHaplotypeFraction	TitanCNA-plotting
plotSegmentMedians	TitanCNA-plotting
plotSubcloneProfiles	TitanCNA-plotting
runEMclonalCN	runEMclonalCN
setGenomeStyle	loadAlleleCounts
TitanCNA	TitanCNA-package
TitanCNA-dataset	TitanCNA-dataset
viterbiClonalCN	viterbiClonalCN
wigToGRanges	wigImport
wigToRangedData	wigImport
