AbstractCBS: The AbstractCBS class
Description
Package: PSCBS
Class AbstractCBS
list
~~|
~~+--AbstractCBS
Directly known subclasses:
CBS, PairedPSCBS, PSCBS
public abstract static class AbstractCBS
extends list
All CBS-style segmentation results extend this class, e.g.
CBS and PairedPSCBS.Usage
AbstractCBS(fit=list(), sampleName=fit$sampleName, ...)
Arguments
fit
A list structure containing the segmentation results. Fields and Methods
Methods:
rll{
append Appends one segmentation result to another.
extractCNs -
getChromosomes Gets the set of chromosomes.
getLocusData Gets the locus-level data.
getSegments Gets the segments.
getSegmentSizes -
load Loads an AbstractCBS object from file.
mergeThreeSegments Merge a segment and its two flanking segments.
nbrOfChangePoints Gets the number of change points.
nbrOfChromosomes Gets the number of chromosomes.
nbrOfLoci Gets the number of loci.
nbrOfSegments Gets the number of segments.
plotTracks Plots the segmentation result along the genome.
sampleCNs -
save Saves an AbstractCBS object to file.
}
Methods inherited from list:
all.equal, as.data.frame, attachLocally, callHooks, relist, within