| .addC1C2WithStatitics |
Source code
|
| .addCACBWithStatitics |
Source code
|
| .onAttach |
Source code
|
| .onLoad |
Source code
|
| .prememoize |
Source code
|
| .setupCacheRootPath |
Source code
|
| .stop_if_not |
Source code
|
| .use |
Source code
|
| .wtd.quantile |
Source code
|
| AbstractCBS |
Man page
|
| AbstractCBS.adjustPloidyScale |
Man page
|
| AbstractCBS.as.data.frame |
Man page
|
| AbstractCBS.dropChangePoint |
Man page
|
| AbstractCBS.dropChangePoints |
Man page
|
| AbstractCBS.dropRegion |
Man page
|
| AbstractCBS.dropRegions |
Man page
|
| AbstractCBS.getChromosomes |
Man page
|
| AbstractCBS.getLocusData |
Man page
|
| AbstractCBS.getSampleName |
Man page
|
| AbstractCBS.getSegments |
Man page
|
| AbstractCBS.hclustCNs |
Man page
|
| AbstractCBS.mergeThreeSegments |
Man page
|
| AbstractCBS.mergeTwoSegments |
Man page
|
| AbstractCBS.nbrOfChangePoints |
Man page
|
| AbstractCBS.nbrOfChromosomes |
Man page
|
| AbstractCBS.nbrOfLoci |
Man page
|
| AbstractCBS.nbrOfSegments |
Man page
|
| AbstractCBS.normalizeTotalCNs |
Man page
|
| AbstractCBS.ploidy |
Man page
|
| AbstractCBS.ploidy<- |
Man page
|
| AbstractCBS.plotTracks |
Man page
|
| AbstractCBS.pruneByDP |
Man page
|
| AbstractCBS.pruneByHClust |
Man page
|
| AbstractCBS.report |
Man page
|
| AbstractCBS.resetSegments |
Man page
|
| AbstractCBS.sampleName |
Man page
|
| AbstractCBS.sampleName<- |
Man page
|
| AbstractCBS.setLocusData |
Man page
|
| AbstractCBS.setPloidy |
Man page
|
| AbstractCBS.setSampleName |
Man page
|
| AbstractCBS.setSegments |
Man page
|
| AbstractCBS.updateMeans |
Man page
|
| AbstractCBS.updateMeansTogether |
Man page
|
| CBS |
Man page
|
| CBS.as.DNAcopy |
Man page
|
| CBS.as.data.frame |
Man page
|
| CBS.c |
Man page
|
| CBS.callAmplifications |
Man page
|
| CBS.callGainsAndLosses |
Man page
|
| CBS.callOutliers |
Man page
|
| CBS.estimateStandardDeviation |
Man page
|
| CBS.extractSegmentMeansByLocus |
Man page
|
| CBS.getCallStatistics |
Man page
|
| CBS.getFGA |
Man page
|
| CBS.getFGG |
Man page
|
| CBS.getFGL |
Man page
|
| CBS.getFractionOfGenomeAltered |
Man page
|
| CBS.getFractionOfGenomeGained |
Man page
|
| CBS.getFractionOfGenomeLost |
Man page
|
| CBS.getSmoothLocusData |
Man page
|
| CBS.joinSegments |
Man page
|
| CBS.mergeNonCalledSegments |
Man page
|
| CBS.plotTracks |
Man page
|
| CBS.pruneBySdUndo |
Man page
|
| CBS.writeSegments |
Man page
|
| DNAcopy.as.CBS |
Man page
|
| Non-documented objects |
Man page
|
| NonPairedPSCBS |
Man page
|
| PSCBS |
Man page
|
| PSCBS-package |
Man page
|
| PSCBS.getSegments |
Man page
|
| PSCBS.writeSegments |
Man page
|
| PairedPSCBS |
Man page
|
| PairedPSCBS.bootstrapTCNandDHByRegion |
Man page
|
| PairedPSCBS.callAB |
Man page
|
| PairedPSCBS.callAllelicBalance |
Man page
|
| PairedPSCBS.callAllelicBalanceByDH |
Man page
|
| PairedPSCBS.callCopyNeutral |
Man page
|
| PairedPSCBS.callCopyNeutralByTCNofAB |
Man page
|
| PairedPSCBS.callGNL |
Man page
|
| PairedPSCBS.callGNLByTCNofAB |
Man page
|
| PairedPSCBS.callGNLByTCNofABv1 |
Man page
|
| PairedPSCBS.callGainNeutralLoss |
Man page
|
| PairedPSCBS.callLOH |
Man page
|
| PairedPSCBS.callNTCN |
Man page
|
| PairedPSCBS.callROH |
Man page
|
| PairedPSCBS.estimateDeltaAB |
Man page
|
| PairedPSCBS.estimateDeltaABBySmallDH |
Man page
|
| PairedPSCBS.estimateDeltaCN |
Man page
|
| PairedPSCBS.estimateDeltaLOH |
Man page
|
| PairedPSCBS.estimateDeltaLOHByMinC1ForNonAB |
Man page
|
| PairedPSCBS.estimateKappa |
Man page
|
| PairedPSCBS.estimateKappaByC1Density |
Man page
|
| PairedPSCBS.extractC1C2 |
Man page
|
| PairedPSCBS.extractMinorMajorCNs |
Man page
|
| PairedPSCBS.extractTCNAndDHs |
Man page
|
| PairedPSCBS.getBootstrapLocusSets |
Man page
|
| PairedPSCBS.mergeTwoSegments |
Man page
|
| PairedPSCBS.plotTracks |
Man page
|
| PairedPSCBS.plotTracks1 |
Man page
|
| PairedPSCBS.plotTracks2 |
Man page
|
| PairedPSCBS.plotTracksManyChromosomes |
Man page
|
| RestructPSCBS |
Man page
|
| Restructuring AbstractCBS objects |
Man page
|
| adjustPloidyScale |
Man page
|
| adjustPloidyScale,AbstractCBS-method |
Man page
|
| adjustPloidyScale.AbstractCBS |
Man page
|
| adjustPloidyScale.PairedPSCBS |
Man page
|
| all.equal.AbstractCBS |
Man page
|
| all.equal.CBS |
Man page
|
| applyByRegion |
Man page
|
| applyByRegion.PairedPSCBS |
Man page
|
| arrowsC1C2 |
Man page
|
| arrowsC1C2.PairedPSCBS |
Man page
|
| arrowsDeltaC1C2 |
Man page
|
| arrowsDeltaC1C2.PairedPSCBS |
Man page
|
| as.CBS |
Man page
|
| as.CBS,DNAcopy-method |
Man page
|
| as.CBS.DNAcopy |
Man page
|
| as.DNAcopy |
Man page
|
| as.DNAcopy,CBS-method |
Man page
|
| as.DNAcopy.CBS |
Man page
|
| as.character.CBS |
Man page
|
| as.data.frame,AbstractCBS-method |
Man page
|
| as.data.frame,CBS-method |
Man page
|
| as.data.frame.AbstractCBS |
Man page
|
| as.data.frame.CBS |
Man page
|
| as.data.frame.PSCBS |
Man page
|
| bootstrapCIs |
Man page
|
| bootstrapCIs.PairedPSCBS |
Man page
|
| bootstrapDHByRegion |
Man page
|
| bootstrapDHByRegion.PairedPSCBS |
Man page
|
| bootstrapSegmentsAndChangepoints |
Man page
|
| bootstrapSegmentsAndChangepoints.PairedPSCBS |
Man page
|
| bootstrapTCNandDHByRegion |
Man page
|
| bootstrapTCNandDHByRegion,PairedPSCBS-method |
Man page
|
| bootstrapTCNandDHByRegion.PairedPSCBS |
Man page
|
| c,CBS-method |
Man page
|
| c.CBS |
Man page
|
| c.PSCBS |
Man page
|
| calcStatsForCopyNeutralABs |
Man page
|
| calcStatsForCopyNeutralABs.PairedPSCBS |
Man page
|
| callAB |
Man page
|
| callAB,PairedPSCBS-method |
Man page
|
| callAB.PairedPSCBS |
Man page
|
| callABandHighAI |
Man page
|
| callABandHighAI.PairedPSCBS |
Man page
|
| callABandLowC1 |
Man page
|
| callABandLowC1.PairedPSCBS |
Man page
|
| callAllelicBalance |
Man page
|
| callAllelicBalance,PairedPSCBS-method |
Man page
|
| callAllelicBalance.PairedPSCBS |
Man page
|
| callAllelicBalance.default |
Man page
|
| callAllelicBalanceByDH |
Man page
|
| callAllelicBalanceByDH,PairedPSCBS-method |
Man page
|
| callAllelicBalanceByDH.PairedPSCBS |
Man page
|
| callAmplifications |
Man page
|
| callAmplifications,CBS-method |
Man page
|
| callAmplifications.CBS |
Man page
|
| callArms |
Man page
|
| callArms.CBS |
Man page
|
| callCopyNeutral |
Man page
|
| callCopyNeutral,PairedPSCBS-method |
Man page
|
| callCopyNeutral.PairedPSCBS |
Man page
|
| callCopyNeutralByTCNofAB |
Man page
|
| callCopyNeutralByTCNofAB,PairedPSCBS-method |
Man page
|
| callCopyNeutralByTCNofAB.PairedPSCBS |
Man page
|
| callExtremeAllelicImbalanceByDH |
Man page
|
| callExtremeAllelicImbalanceByDH.PairedPSCBS |
Man page
|
| callGLAO |
Man page
|
| callGLAO.CBS |
Man page
|
| callGNL |
Man page
|
| callGNL,PairedPSCBS-method |
Man page
|
| callGNL.PairedPSCBS |
Man page
|
| callGNLByTCNofAB |
Man page
|
| callGNLByTCNofAB,PairedPSCBS-method |
Man page
|
| callGNLByTCNofAB.PairedPSCBS |
Man page
|
| callGNLByTCNofABv1 |
Man page
|
| callGNLByTCNofABv1,PairedPSCBS-method |
Man page
|
| callGNLByTCNofABv1.PairedPSCBS |
Man page
|
| callGainNeutralLoss |
Man page
|
| callGainNeutralLoss,PairedPSCBS-method |
Man page
|
| callGainNeutralLoss.PairedPSCBS |
Man page
|
| callGainsAndLosses |
Man page
|
| callGainsAndLosses,CBS-method |
Man page
|
| callGainsAndLosses.CBS |
Man page
|
| callLOH |
Man page
|
| callLOH,PairedPSCBS-method |
Man page
|
| callLOH.PairedPSCBS |
Man page
|
| callLowC1ByC1 |
Man page
|
| callLowC1ByC1.PairedPSCBS |
Man page
|
| callNTCN |
Man page
|
| callNTCN,PairedPSCBS-method |
Man page
|
| callNTCN.PairedPSCBS |
Man page
|
| callOutliers |
Man page
|
| callOutliers,CBS-method |
Man page
|
| callOutliers.CBS |
Man page
|
| callROH |
Man page
|
| callROH,PairedPSCBS-method |
Man page
|
| callROH.NonPairedPSCBS |
Man page
|
| callROH.PairedPSCBS |
Man page
|
| callROHOneSegment |
Man page
|
| callROHOneSegment.PairedPSCBS |
Man page
|
| callSegmentationOutliers |
Man page
|
| callSegmentationOutliers.data.frame |
Man page
|
| callSegmentationOutliers.default |
Man page
|
| clearBootstrapSummaries |
Man page
|
| clearBootstrapSummaries.PairedPSCBS |
Man page
|
| clearCalls |
Man page
|
| clearCalls.AbstractCBS |
Man page
|
| drawCentromeres |
Man page
|
| drawCentromeres.CBS |
Man page
|
| drawChangePoints |
Man page
|
| drawChangePoints.AbstractCBS |
Man page
|
| drawChangePoints.CBS |
Man page
|
| drawChangePoints.PSCBS |
Man page
|
| drawChangePointsC1C2 |
Man page
|
| drawChangePointsC1C2.PairedPSCBS |
Man page
|
| drawChromosomes |
Man page
|
| drawChromosomes.CBS |
Man page
|
| drawConfidenceBands |
Man page
|
| drawConfidenceBands.PairedPSCBS |
Man page
|
| drawKnownSegments |
Man page
|
| drawKnownSegments.AbstractCBS |
Man page
|
| drawLevels |
Man page
|
| drawLevels.CBS |
Man page
|
| drawLevels.DNAcopy |
Man page
|
| drawLevels.PairedPSCBS |
Man page
|
| dropChangePoint |
Man page
|
| dropChangePoint,AbstractCBS-method |
Man page
|
| dropChangePoint.AbstractCBS |
Man page
|
| dropChangePoints |
Man page
|
| dropChangePoints,AbstractCBS-method |
Man page
|
| dropChangePoints.AbstractCBS |
Man page
|
| dropRegion |
Man page
|
| dropRegion,AbstractCBS-method |
Man page
|
| dropRegion.AbstractCBS |
Man page
|
| dropRegions |
Man page
|
| dropRegions,AbstractCBS-method |
Man page
|
| dropRegions.AbstractCBS |
Man page
|
| dropSegmentationOutliers |
Man page
|
| dropSegmentationOutliers.data.frame |
Man page
|
| dropSegmentationOutliers.default |
Man page
|
| encodeCalls |
Man page
|
| encodeCalls.data.frame |
Man page
|
| estimateDeltaAB |
Man page
|
| estimateDeltaAB,PairedPSCBS-method |
Man page
|
| estimateDeltaAB.PairedPSCBS |
Man page
|
| estimateDeltaABBySmallDH |
Man page
|
| estimateDeltaABBySmallDH,PairedPSCBS-method |
Man page
|
| estimateDeltaABBySmallDH.PairedPSCBS |
Man page
|
| estimateDeltaCN |
Man page
|
| estimateDeltaCN,PairedPSCBS-method |
Man page
|
| estimateDeltaCN.CBS |
Man page
|
| estimateDeltaCN.PairedPSCBS |
Man page
|
| estimateDeltaLOH |
Man page
|
| estimateDeltaLOH,PairedPSCBS-method |
Man page
|
| estimateDeltaLOH.PairedPSCBS |
Man page
|
| estimateDeltaLOHByMinC1ForNonAB |
Man page
|
| estimateDeltaLOHByMinC1ForNonAB,PairedPSCBS-method |
Man page
|
| estimateDeltaLOHByMinC1ForNonAB.PairedPSCBS |
Man page
|
| estimateHighDHQuantileAtAB |
Man page
|
| estimateHighDHQuantileAtAB.PairedPSCBS |
Man page
|
| estimateKappa |
Man page
|
| estimateKappa,PairedPSCBS-method |
Man page
|
| estimateKappa.PairedPSCBS |
Man page
|
| estimateKappaByC1Density |
Man page
|
| estimateKappaByC1Density,PairedPSCBS-method |
Man page
|
| estimateKappaByC1Density.PairedPSCBS |
Man page
|
| estimateMeanForDH |
Man page
|
| estimateMeanForDH.PairedPSCBS |
Man page
|
| estimateStandardDeviation |
Man page
|
| estimateStandardDeviation,CBS-method |
Man page
|
| estimateStandardDeviation.CBS |
Man page
|
| estimateStandardDeviation.DNAcopy |
Man page
|
| estimateStdDevForHeterozygousBAF |
Man page
|
| estimateStdDevForHeterozygousBAF.PairedPSCBS |
Man page
|
| exampleData |
Man page
|
| exampleData.default |
Man page
|
| extractC1C2 |
Man page
|
| extractC1C2,PairedPSCBS-method |
Man page
|
| extractC1C2.PairedPSCBS |
Man page
|
| extractCNs |
Man page
|
| extractCNs.AbstractCBS |
Man page
|
| extractCNs.CBS |
Man page
|
| extractCNs.PairedPSCBS |
Man page
|
| extractCallsByLocus |
Man page
|
| extractCallsByLocus.CBS |
Man page
|
| extractCallsByLocus.PairedPSCBS |
Man page
|
| extractChromosome |
Man page
|
| extractChromosome.AbstractCBS |
Man page
|
| extractChromosomes |
Man page
|
| extractChromosomes.AbstractCBS |
Man page
|
| extractChromosomes.CBS |
Man page
|
| extractChromosomes.PSCBS |
Man page
|
| extractDeltaC1C2 |
Man page
|
| extractDeltaC1C2.PairedPSCBS |
Man page
|
| extractDhSegment |
Man page
|
| extractDhSegment.PairedPSCBS |
Man page
|
| extractLocusLevelC1C2 |
Man page
|
| extractLocusLevelC1C2.PairedPSCBS |
Man page
|
| extractLocusLevelTCN |
Man page
|
| extractLocusLevelTCN.PairedPSCBS |
Man page
|
| extractMinorMajorCNs |
Man page
|
| extractMinorMajorCNs,PairedPSCBS-method |
Man page
|
| extractMinorMajorCNs.PairedPSCBS |
Man page
|
| extractRegion |
Man page
|
| extractRegion.AbstractCBS |
Man page
|
| extractRegions |
Man page
|
| extractRegions.AbstractCBS |
Man page
|
| extractSegment |
Man page
|
| extractSegment.AbstractCBS |
Man page
|
| extractSegmentDataByLocus |
Man page
|
| extractSegmentDataByLocus.PairedPSCBS |
Man page
|
| extractSegmentMeansByLocus |
Man page
|
| extractSegmentMeansByLocus,CBS-method |
Man page
|
| extractSegmentMeansByLocus.CBS |
Man page
|
| extractSegmentMeansByLocus.DNAcopy |
Man page
|
| extractSegments |
Man page
|
| extractSegments.AbstractCBS |
Man page
|
| extractSegments.CBS |
Man page
|
| extractSegments.PairedPSCBS |
Man page
|
| extractTCNAndDHs |
Man page
|
| extractTCNAndDHs,PairedPSCBS-method |
Man page
|
| extractTCNAndDHs.PairedPSCBS |
Man page
|
| extractTotalCNs |
Man page
|
| extractTotalCNs.CBS |
Man page
|
| extractWIG |
Man page
|
| extractWIG.AbstractCBS |
Man page
|
| extractWIG.CBS |
Man page
|
| extractWIG.PSCBS |
Man page
|
| findBootstrapSummaries |
Man page
|
| findBootstrapSummaries.PairedPSCBS |
Man page
|
| findLargeGaps |
Man page
|
| findLargeGaps.data.frame |
Man page
|
| findLargeGaps.default |
Man page
|
| findNeutralCopyNumberState |
Man page
|
| findNeutralCopyNumberState.default |
Man page
|
| gapsToSegments |
Man page
|
| gapsToSegments.data.frame |
Man page
|
| getBootstrapLocusSets |
Man page
|
| getBootstrapLocusSets,PairedPSCBS-method |
Man page
|
| getBootstrapLocusSets.PairedPSCBS |
Man page
|
| getCallStatistics |
Man page
|
| getCallStatistics,CBS-method |
Man page
|
| getCallStatistics.CBS |
Man page
|
| getCallStatisticsByArms |
Man page
|
| getCallStatisticsByArms.CBS |
Man page
|
| getChangePoints |
Man page
|
| getChangePoints.AbstractCBS |
Man page
|
| getChangePoints.CBS |
Man page
|
| getChangePoints.PSCBS |
Man page
|
| getChromosomeOffsets |
Man page
|
| getChromosomeOffsets.AbstractCBS |
Man page
|
| getChromosomeOffsets.PairedPSCBS |
Man page
|
| getChromosomeRanges |
Man page
|
| getChromosomeRanges.AbstractCBS |
Man page
|
| getChromosomeRanges.CBS |
Man page
|
| getChromosomeRanges.PairedPSCBS |
Man page
|
| getChromosomes |
Man page
|
| getChromosomes,AbstractCBS-method |
Man page
|
| getChromosomes.AbstractCBS |
Man page
|
| getChromosomes.DNAcopy |
Man page
|
| getFGA |
Man page
|
| getFGA,CBS-method |
Man page
|
| getFGA.CBS |
Man page
|
| getFGG |
Man page
|
| getFGG,CBS-method |
Man page
|
| getFGG.CBS |
Man page
|
| getFGL |
Man page
|
| getFGL,CBS-method |
Man page
|
| getFGL.CBS |
Man page
|
| getFractionOfGenomeAltered |
Man page
|
| getFractionOfGenomeAltered,CBS-method |
Man page
|
| getFractionOfGenomeAltered.CBS |
Man page
|
| getFractionOfGenomeGained |
Man page
|
| getFractionOfGenomeGained,CBS-method |
Man page
|
| getFractionOfGenomeGained.CBS |
Man page
|
| getFractionOfGenomeLost |
Man page
|
| getFractionOfGenomeLost,CBS-method |
Man page
|
| getFractionOfGenomeLost.CBS |
Man page
|
| getLocusData |
Man page
|
| getLocusData,AbstractCBS-method |
Man page
|
| getLocusData.AbstractCBS |
Man page
|
| getLocusData.CBS |
Man page
|
| getLocusData.NonPairedPSCBS |
Man page
|
| getLocusData.PSCBS |
Man page
|
| getLocusData.PairedPSCBS |
Man page
|
| getLocusSignalNames |
Man page
|
| getLocusSignalNames.AbstractCBS |
Man page
|
| getLocusSignalNames.CBS |
Man page
|
| getLocusSignalNames.PSCBS |
Man page
|
| getMeanEstimators |
Man page
|
| getMeanEstimators.AbstractCBS |
Man page
|
| getSampleName |
Man page
|
| getSampleName,AbstractCBS-method |
Man page
|
| getSampleName.AbstractCBS |
Man page
|
| getSampleNames |
Man page
|
| getSampleNames.DNAcopy |
Man page
|
| getSegmentSizes |
Man page
|
| getSegmentSizes.AbstractCBS |
Man page
|
| getSegmentSizes.CBS |
Man page
|
| getSegmentSizes.PSCBS |
Man page
|
| getSegmentTrackPrefixes |
Man page
|
| getSegmentTrackPrefixes.AbstractCBS |
Man page
|
| getSegmentTrackPrefixes.CBS |
Man page
|
| getSegmentTrackPrefixes.PSCBS |
Man page
|
| getSegments |
Man page
|
| getSegments,AbstractCBS-method |
Man page
|
| getSegments,PSCBS-method |
Man page
|
| getSegments.AbstractCBS |
Man page
|
| getSegments.CBS |
Man page
|
| getSegments.PSCBS |
Man page
|
| getSignalType |
Man page
|
| getSignalType.CBS |
Man page
|
| getSmoothLocusData |
Man page
|
| getSmoothLocusData,CBS-method |
Man page
|
| getSmoothLocusData.CBS |
Man page
|
| hasBootstrapSummaries |
Man page
|
| hasBootstrapSummaries.PairedPSCBS |
Man page
|
| hclustCNs |
Man page
|
| hclustCNs,AbstractCBS-method |
Man page
|
| hclustCNs.AbstractCBS |
Man page
|
| highlightArmCalls |
Man page
|
| highlightArmCalls.CBS |
Man page
|
| highlightCalls |
Man page
|
| highlightCalls.CBS |
Man page
|
| highlightLocusCalls |
Man page
|
| highlightLocusCalls.CBS |
Man page
|
| installDNAcopy |
Man page
|
| installDNAcopy.default |
Man page
|
| isLocallyPhased |
Man page
|
| isLocallyPhased.PSCBS |
Man page
|
| isSegmentSplitter |
Man page
|
| isSegmentSplitter.CBS |
Man page
|
| isSegmentSplitter.PSCBS |
Man page
|
| isWholeChromosomeGained |
Man page
|
| isWholeChromosomeGained.CBS |
Man page
|
| isWholeChromosomeLost |
Man page
|
| isWholeChromosomeLost.CBS |
Man page
|
| joinSegments |
Man page
|
| joinSegments,CBS-method |
Man page
|
| joinSegments.CBS |
Man page
|
| linesC1C2 |
Man page
|
| linesC1C2.PairedPSCBS |
Man page
|
| linesDeltaC1C2 |
Man page
|
| linesDeltaC1C2.PairedPSCBS |
Man page
|
| mergeNonCalledSegments |
Man page
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| mergeNonCalledSegments,CBS-method |
Man page
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| mergeNonCalledSegments.CBS |
Man page
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| mergeThreeSegments |
Man page
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| mergeThreeSegments,AbstractCBS-method |
Man page
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| mergeThreeSegments.AbstractCBS |
Man page
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| mergeTwoSegments |
Man page
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| mergeTwoSegments,AbstractCBS-method |
Man page
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| mergeTwoSegments,PairedPSCBS-method |
Man page
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| mergeTwoSegments.AbstractCBS |
Man page
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| mergeTwoSegments.CBS |
Man page
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| mergeTwoSegments.PairedPSCBS |
Man page
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| nbrOfAmplifications |
Man page
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| nbrOfAmplifications.CBS |
Man page
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| nbrOfChangePoints |
Man page
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| nbrOfChangePoints,AbstractCBS-method |
Man page
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| nbrOfChangePoints.AbstractCBS |
Man page
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| nbrOfChromosomes |
Man page
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| nbrOfChromosomes,AbstractCBS-method |
Man page
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| nbrOfChromosomes.AbstractCBS |
Man page
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| nbrOfGains |
Man page
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| nbrOfGains.CBS |
Man page
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| nbrOfLoci |
Man page
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| nbrOfLoci,AbstractCBS-method |
Man page
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| nbrOfLoci.AbstractCBS |
Man page
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| nbrOfLoci.DNAcopy |
Man page
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| nbrOfLosses |
Man page
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| nbrOfLosses.CBS |
Man page
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| nbrOfSamples |
Man page
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| nbrOfSamples.DNAcopy |
Man page
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| nbrOfSegments |
Man page
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| nbrOfSegments,AbstractCBS-method |
Man page
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| nbrOfSegments.AbstractCBS |
Man page
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| nbrOfSegments.DNAcopy |
Man page
|
| normalizeTotalCNs |
Man page
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| normalizeTotalCNs,AbstractCBS-method |
Man page
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| normalizeTotalCNs.AbstractCBS |
Man page
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| normalizeTotalCNs.PSCBS |
Man page
|
| ploidy |
Man page
|
| ploidy,AbstractCBS-method |
Man page
|
| ploidy.AbstractCBS |
Man page
|
| ploidy<- |
Man page
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| ploidy<-,AbstractCBS-method |
Man page
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| ploidy<-.AbstractCBS |
Man page
|
| plot |
Man page
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| plot.CBS |
Man page
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| plot.PairedPSCBS |
Man page
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| plotC1C2 |
Man page
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| plotC1C2.PairedPSCBS |
Man page
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| plotDeltaC1C2 |
Man page
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| plotDeltaC1C2.PairedPSCBS |
Man page
|
| plotTracks |
Man page
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| plotTracks,AbstractCBS-method |
Man page
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| plotTracks,CBS-method |
Man page
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| plotTracks,PairedPSCBS-method |
Man page
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| plotTracks.AbstractCBS |
Man page
|
| plotTracks.CBS |
Man page
|
| plotTracks.PairedPSCBS |
Man page
|
| plotTracks1 |
Man page
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| plotTracks1,PairedPSCBS-method |
Man page
|
| plotTracks1.PairedPSCBS |
Man page
|
| plotTracks2 |
Man page
|
| plotTracks2,PairedPSCBS-method |
Man page
|
| plotTracks2.PairedPSCBS |
Man page
|
| plotTracksManyChromosomes |
Man page
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| plotTracksManyChromosomes,PairedPSCBS-method |
Man page
|
| plotTracksManyChromosomes.CBS |
Man page
|
| plotTracksManyChromosomes.PairedPSCBS |
Man page
|
| pointsC1C2 |
Man page
|
| pointsC1C2.PairedPSCBS |
Man page
|
| pointsDeltaC1C2 |
Man page
|
| pointsDeltaC1C2.PairedPSCBS |
Man page
|
| postsegmentTCN |
Man page
|
| postsegmentTCN.PairedPSCBS |
Man page
|
| print.AbstractCBS |
Man page
|
| pruneByDP |
Man page
|
| pruneByDP,AbstractCBS-method |
Man page
|
| pruneByDP.AbstractCBS |
Man page
|
| pruneByHClust |
Man page
|
| pruneByHClust,AbstractCBS-method |
Man page
|
| pruneByHClust.AbstractCBS |
Man page
|
| pruneBySdUndo |
Man page
|
| pruneBySdUndo,CBS-method |
Man page
|
| pruneBySdUndo.CBS |
Man page
|
| randomSeed |
Man page
|
| renameChromosomes |
Man page
|
| renameChromosomes.AbstractCBS |
Man page
|
| report |
Man page
|
| report,AbstractCBS-method |
Man page
|
| report.AbstractCBS |
Man page
|
| resegment |
Man page
|
| resegment.AbstractCBS |
Man page
|
| resegment.CBS |
Man page
|
| resegment.NonPairedPSCBS |
Man page
|
| resegment.PairedPSCBS |
Man page
|
| resetSegments |
Man page
|
| resetSegments,AbstractCBS-method |
Man page
|
| resetSegments.AbstractCBS |
Man page
|
| sampleCNs |
Man page
|
| sampleCNs.AbstractCBS |
Man page
|
| sampleName |
Man page
|
| sampleName,AbstractCBS-method |
Man page
|
| sampleName.AbstractCBS |
Man page
|
| sampleName<- |
Man page
|
| sampleName<-,AbstractCBS-method |
Man page
|
| sampleName<-.AbstractCBS |
Man page
|
| segmentByCBS |
Man page
Man page
|
| segmentByCBS.CBS |
Man page
|
| segmentByCBS.CNA |
Man page
|
| segmentByCBS.data.frame |
Man page
|
| segmentByCBS.default |
Man page
|
| segmentByNonPairedPSCBS |
Man page
Man page
|
| segmentByNonPairedPSCBS.PairedPSCBS |
Man page
|
| segmentByNonPairedPSCBS.data.frame |
Man page
|
| segmentByNonPairedPSCBS.default |
Man page
|
| segmentByPairedPSCBS |
Man page
Man page
|
| segmentByPairedPSCBS.PairedPSCBS |
Man page
|
| segmentByPairedPSCBS.data.frame |
Man page
|
| segmentByPairedPSCBS.default |
Man page
|
| seqOfSegmentsByDP |
Man page
|
| seqOfSegmentsByDP.AbstractCBS |
Man page
|
| seqOfSegmentsByDP.CBS |
Man page
|
| seqOfSegmentsByDP.PairedPSCBS |
Man page
|
| seqOfSegmentsByDP.matrix |
Man page
|
| setLocusData |
Man page
|
| setLocusData,AbstractCBS-method |
Man page
|
| setLocusData.AbstractCBS |
Man page
Man page
|
| setMeanEstimators |
Man page
|
| setMeanEstimators.AbstractCBS |
Man page
|
| setPloidy |
Man page
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| setPloidy,AbstractCBS-method |
Man page
|
| setPloidy.AbstractCBS |
Man page
|
| setSampleName |
Man page
|
| setSampleName,AbstractCBS-method |
Man page
|
| setSampleName.AbstractCBS |
Man page
|
| setSegments |
Man page
|
| setSegments,AbstractCBS-method |
Man page
|
| setSegments.AbstractCBS |
Man page
Man page
|
| shiftTCN |
Man page
|
| shiftTCN.AbstractCBS |
Man page
|
| shiftTCN.CBS |
Man page
|
| shiftTCN.PairedPSCBS |
Man page
|
| signalType |
Man page
|
| signalType.CBS |
Man page
|
| signalType<- |
Man page
|
| signalType<-.CBS |
Man page
|
| subset.CBS |
Man page
|
| testROH |
Man page
|
| testROH.numeric |
Man page
|
| tileChromosomes |
Man page
|
| tileChromosomes.AbstractCBS |
Man page
|
| tileChromosomes.CBS |
Man page
|
| tileChromosomes.PairedPSCBS |
Man page
|
| unTumorBoost |
Man page
|
| unTumorBoost.PairedPSCBS |
Man page
|
| updateBoundaries |
Man page
|
| updateBoundaries.CBS |
Man page
|
| updateMeans |
Man page
|
| updateMeans,AbstractCBS-method |
Man page
|
| updateMeans.AbstractCBS |
Man page
|
| updateMeans.CBS |
Man page
|
| updateMeans.NonPairedPSCBS |
Man page
|
| updateMeans.PairedPSCBS |
Man page
|
| updateMeansC1C2 |
Man page
|
| updateMeansC1C2.PairedPSCBS |
Man page
|
| updateMeansTogether |
Man page
|
| updateMeansTogether,AbstractCBS-method |
Man page
|
| updateMeansTogether.AbstractCBS |
Man page
|
| updateMeansTogether.CBS |
Man page
|
| updateMeansTogether.PairedPSCBS |
Man page
|
| weightedQuantile |
Man page
|
| weightedQuantile.default |
Man page
|
| writeLocusData |
Man page
|
| writeLocusData.CBS |
Man page
|
| writeSegments |
Man page
|
| writeSegments,CBS-method |
Man page
|
| writeSegments,PSCBS-method |
Man page
|
| writeSegments.CBS |
Man page
|
| writeSegments.DNAcopy |
Man page
|
| writeSegments.PSCBS |
Man page
|
| writeWIG |
Man page
|
| writeWIG.AbstractCBS |
Man page
|
