breakpointR-package	breakpointR-package
BreakPoint	BreakPoint
breakpointR	breakpointR-package
breakpointr	breakpointr
breakpointr2UCSC	breakpointr2UCSC
breakSeekr	breakSeekr
collapseBins	collapseBins
confidenceInterval	confidenceInterval
confidenceInterval.binomial	confidenceInterval.binomial
createCompositeFile	createCompositeFile
deltaWCalculator	deltaWCalculator
exportRegions	exportRegions
genotype.binom	genotyping
genotype.fisher	genotyping
GenotypeBreaks	genotyping
genotyping	genotyping
hotspotter	hotspotter
insertchr	insertchr
loadFromFiles	loadFromFiles
plotBreakpoints	plotBreakpoints
plotBreakpointsPerChr	plotBreakpointsPerChr
plotHeatmap	plotHeatmap
ranges2UCSC	ranges2UCSC
readBamFileAsGRanges	readBamFileAsGRanges
readConfig	readConfig
removeDoubleSCEs	removeDoubleSCEs
runBreakpointr	runBreakpointr
summarizeBreaks	summarizeBreaks
synchronizeReadDir	synchronizeReadDir
transCoord	transCoord
writeConfig	writeConfig
