calcFractionalCopyNumbers	calcFractionalCopyNumbers
calcFractionalCopyNumbers,CNVDetectionResult-method	calcFractionalCopyNumbers-CNVDetectionResult-method
calcIntegerCopyNumbers	calcIntegerCopyNumbers
calcIntegerCopyNumbers,CNVDetectionResult-method	calcIntegerCopyNumbers-CNVDetectionResult-method
cn.mops	cn.mops
CNVDetectionResult	CNVDetectionResult
CnvDetectionResult	CNVDetectionResult
cnvdetectionresult	CNVDetectionResult
CNVDetectionResult-class	CNVDetectionResult
cnvr	cnvr
cnvr,CNVDetectionResult-method	cnvr-CNVDetectionResult-method
CNVRanges	CNVRanges
cnvs	cnvs
cnvs,CNVDetectionResult-method	cnvs-CNVDetectionResult-method
exomecn.mops	exomecn.mops
exomeCounts	exomeCounts
getReadCountsFromBAM	getReadCountsFromBAM
getSegmentReadCountsFromBAM	getSegmentReadCountsFromBAM
gr	gr
gr,CNVDetectionResult-method	gr-CNVDetectionResult-method
haplocn.mops	haplocn.mops
individualCall	individualCall
individualCall,CNVDetectionResult-method	individualCall-CNVDetectionResult-method
iniCall	iniCall
iniCall,CNVDetectionResult-method	iniCall-CNVDetectionResult-method
integerCopyNumber	integerCopyNumber
integerCopyNumber,CNVDetectionResult-method	integerCopyNumber-CNVDetectionResult-method
localAssessments	localAssessments
localAssessments,CNVDetectionResult-method	localAssessments-CNVDetectionResult-method
makeRobustCNVR	makeRobustCNVR
makeRobustCNVR,CNVDetectionResult-method	makeRobustCNVR
normalizeChromosomes	normalizeChromosomes
normalizedData	normalizedData
normalizedData,CNVDetectionResult-method	normalizedData-CNVDetectionResult-method
normalizeGenome	normalizeGenome
params	params
params,CNVDetectionResult-method	params-CNVDetectionResult-method
plot,CNVDetectionResult,missing-method	plot
plot-methods	plot
posteriorProbs	posteriorProbs
posteriorProbs,CNVDetectionResult-method	posteriorProbs-CNVDetectionResult-method
referencecn.mops	referencecn.mops
sampleNames	sampleNames
sampleNames,CNVDetectionResult-method	sampleNames-CNVDetectionResult-method
segment	segment
segmentation	segmentation
segmentation,CNVDetectionResult-method	segmentation-CNVDetectionResult-method
segplot	segplot
segplot,CNVDetectionResult-method	segplot-CNVDetectionResult-method
show,CNVDetectionResult-method	show
show-methods	show
singlecn.mops	singlecn.mops
X	X
XRanges	XRanges
