alterCN	alterCN
arrayID	arrayType
arrayID,QCIllumina-method	QCIllumina-class
arrayID<-	arrayType
arrayID<-,QCIllumina-method	QCIllumina-class
arrayType	arrayType
arrayType,QCIllumina-method	QCIllumina-class
arrayType<-	arrayType
arrayType<-,QCIllumina-method	QCIllumina-class
backgroundCorrect.SNP	backgroundCorrect.SNP
backgroundEstimate	backgroundEstimate
BeadstudioQC	BeadstudioQC
calculateGSR	class.SnpSetIllumina
calculateGSR,SnpSetIllumina-method	class.SnpSetIllumina
calculateLair	calculateLOH
calculateLOH	calculateLOH
calculateQCarray	calculateQCarray
calculateSmooth	class.SnpSetIllumina
calculateSmooth,SnpSetIllumina,character-method	class.SnpSetIllumina
chr17.260	Datasets
class:SnpSetIllumina	class.SnpSetIllumina
cn.segments	SnpSetSegments-class
cn.segments,SnpSetSegments-method	SnpSetSegments-class
cn.segments<-	SnpSetSegments-class
cn.segments<-,SnpSetSegments,list-method	SnpSetSegments-class
combine,SnpSetIllumina,ANY-method	class.SnpSetIllumina
combine,SnpSetIllumina,SnpSetIllumina-method	class.SnpSetIllumina
compareGenotypes	compareGenotypes
convert2aCGH	CopynumberConversion
convert2SegList	CopynumberConversion
createCNSummary	createCNSummary
dist.GT	dist.GT
exprs,SnpSetIllumina-method	class.SnpSetIllumina
exprs<-,SnpSetIllumina,matrix-method	class.SnpSetIllumina
fData,SnpSetIllumina-method	class.SnpSetIllumina
fData<-,SnpSetIllumina,data.frame-method	class.SnpSetIllumina
featureData,SnpSetIllumina-method	class.SnpSetIllumina
featureData<-,SnpSetIllumina-method	class.SnpSetIllumina
GetBeadStudioSampleNames	GetBeadStudioSampleNames
getDNAindex	getDNAindex
heterozygosity	heterozygosity
heterozygousSNPs	heterozygousSNPs
initialize,QCIllumina-method	QCIllumina-class
initialize,SnpSetIllumina-method	class.SnpSetIllumina
initialize,SnpSetSegments-method	SnpSetSegments-class
interactiveCNselect	interactiveCNselect
normalizeBetweenAlleles.SNP	normalizeBetweenAlleles.SNP
normalizeBetweenSubsamples.SNP	normalizeBetweenSubsamples.SNP
normalizeLoci.SNP	normalizeLoci.SNP
normalizeWithinArrays.SNP	normalizeWithinArrays.SNP
pdfBeadstudioQC	BeadstudioQC
pdfChromosomeGainLossLOH	pdfChromosomesSmoothCopyNumber
pdfChromosomesSmoothCopyNumber	pdfChromosomesSmoothCopyNumber
pdfQC	pdfQC
pdfSamplesSmoothCopyNumber	pdfChromosomesSmoothCopyNumber
plotGenomePanels	plotGoldenGate4OPA
plotGoldenGate4OPA	plotGoldenGate4OPA
plotQC	plotQC
plotQC,QCIllumina-method	QCIllumina-class
polar2RG	PolarTransforms
QC.260	Datasets
QCIllumina	QCIllumina-class
QCIllumina-class	QCIllumina-class
read.SnpSetIllumina	read.SnpSetIllumina
removeLowQualityProbes	removeLowQualityProbes
removeLowQualitySamples	removeLowQualitySamples
renameOPA	renameOPA
reportChromosomeGainLossLOH	GenomicReports
reportChromosomesSmoothCopyNumber	GenomicReports
reportGenomeGainLossLOH	GenomicReports
reportGenomeIntensityPlot	GenomicReports
reportGenotypeSegmentation	reportGenotypeSegmentation
reportSamplePanelQC	reportSamplePanelQC-methods
reportSamplePanelQC,QCIllumina-method	reportSamplePanelQC-methods
reportSamplePanelQC-methods	reportSamplePanelQC-methods
reportSamplesSmoothCopyNumber	GenomicReports
RG2polar	PolarTransforms
Sample_Map2Samplesheet	Sample_Map2Samplesheet
segmentate	segmentate
setRealCN	setRealCN
smoothed.intensity	smoothed.intensity
SnpSetIllumina	class.SnpSetIllumina
SnpSetIllumina-class	class.SnpSetIllumina
SnpSetSegments-class	SnpSetSegments-class
sortGenomic	class.SnpSetIllumina
sortGenomic,SnpSetIllumina-method	class.SnpSetIllumina
standardNormalization	standardNormalization
[,SnpSetIllumina-method	class.SnpSetIllumina
