Package: PSCBS Class PSCBS
list
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~~+--AbstractCBS
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~~~~~~~+--PSCBS
Directly known subclasses: NonPairedPSCBS, PairedPSCBS
public abstract static class PSCBS extends AbstractCBS
A PSCBS is an object containing results from parent-specific copy-number (PSCN) segmentation.
PSCBS(fit=list(), ...)A list structure containing the PSCN segmentation results.
Not used.
Methods:
append |
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isLocallyPhased |
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normalizeTotalCNs |
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writeSegments |
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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, normalizeTotalCNs, 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