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aroma.core (version 1.2.0)

SegmentedAlleleBFractions: The SegmentedAlleleBFractions class

Description

Package: aroma.core Class SegmentedAlleleBFractions Object ~~| ~~+--RawGenomicSignals ~~~~~~~| ~~~~~~~+--RawAlleleBFractions ~~~~~~~~~~~~| ~~~~~~~~~~~~+--SegmentedGenomicSignalsInterface ~~~~~~~~~~~~~~~~~| ~~~~~~~~~~~~~~~~~+--SegmentedAlleleBFractions Directly known subclasses: public static class SegmentedAlleleBFractions extends SegmentedGenomicSignalsInterface

Usage

SegmentedAlleleBFractions(..., states=NULL)

Arguments

...
Arguments passed to RawAlleleBFractions.
states
A function returning the copy-number states given a vector of locus positions.

Fields and Methods

Methods: No methods defined. Methods inherited from SegmentedGenomicSignalsInterface: as.data.frame, binnedSmoothingByState, extractSubsetByState, getStateColorMap, getStateColors, getStates, getUniqueStates, kernelSmoothingByState, plot, points, setStateColorMap, setStates Methods inherited from RawAlleleBFractions: extractRawMirroredAlleleBFractions, plot Methods inherited from RawGenomicSignals: addBy, addLocusFields, append, applyBinaryOperator, as.data.frame, binnedSmoothing, divideBy, estimateStandardDeviation, extractDataForSegmentation, extractRegion, extractSubset, gaussianSmoothing, getChromosome, getLocusFields, getName, getPositions, getSigma, getSignals, getWeights, getXScale, getXY, getYScale, hasWeights, kernelSmoothing, lines, multiplyBy, nbrOfLoci, plot, points, setLocusFields, setSigma, setWeights, setXScale, setYScale, signalRange, sort, subtractBy, summary, xMax, xMin, xRange, xSeq, yMax, yMin, yRange Methods inherited from Object: asThis, $, $<-, [[, [[<-, as.character, attach, attachLocally, clearCache, clone, detach, equals, extend, finalize, gc, getEnvironment, getFields, getInstantiationTime, getStaticInstance, hasField, hashCode, ll, load, objectSize, print, registerFinalizer, save