list
~~|
~~+--AbstractCBS
~~~~~~~|
~~~~~~~+--PSCBS
~~~~~~~~~~~~|
~~~~~~~~~~~~+--PairedPSCBS
Directly known subclasses:
public abstract static class PairedPSCBS
extends PSCBS
A PairedPSCBS is an object containing the results from the
Paired PSCBS method.PairedPSCBS(fit=list(), ...)list structure containing the Paired PSCBS results.callAB -
callCopyNeutral -
callGNL -
callGNLByTCNofAB -
callGainNeutralLoss -
callLOH -
callNTCN -
callROH -
estimateDeltaAB -
estimateDeltaLOH -
estimateKappa -
extractCNs -
hasBootstrapSummaries -
plotTracks -
segmentByNonPairedPSCBS -
segmentByPairedPSCBS -
seqOfSegmentsByDP -
}Methods inherited from PSCBS: append, as.data.frame, drawChangePoints, extractChromosomes, extractWIG, getLocusData, getLocusSignalNames, getSegmentTrackPrefixes, isSegmentSplitter, writeSegments
Methods inherited from AbstractCBS: adjustPloidyScale, all.equal, append, as.data.frame, clearCalls, drawChangePoints, drawKnownSegments, dropChangePoint, dropChangePoints, dropRegion, dropRegions, extractCNs, extractChromosome, extractChromosomes, extractRegions, extractSegments, extractWIG, getChangePoints, getChromosomeOffsets, getChromosomeRanges, getChromosomes, getLocusData, getLocusSignalNames, getMeanEstimators, getSampleName, getSegmentSizes, getSegmentTrackPrefixes, getSegments, load, mergeThreeSegments, mergeTwoSegments, nbrOfChangePoints, nbrOfChromosomes, nbrOfLoci, nbrOfSegments, ploidy, ploidy<-, plotTracks, print, pruneByDP, pruneByHClust, renameChromosomes, report, resegment, resetSegments, sampleCNs, sampleName, sampleName<-, save, seqOfSegmentsByDP, setLocusData, setMeanEstimators, setPloidy, setSampleName, setSegments, shiftTCN, tileChromosomes, updateMeans, writeWIG
Methods inherited from list: all.equal, as.data.frame, attachLocally, callHooks, relist, within
segmentByPairedPSCBS() method returns an object of this class.