CopyNumberSegmentationModel {aroma.affymetrix}R Documentation

The CopyNumberSegmentationModel class

Description

Package: aroma.affymetrix
Class CopyNumberSegmentationModel

Object
~~|
~~+--ChromosomalModel
~~~~~~~|
~~~~~~~+--CopyNumberChromosomalModel
~~~~~~~~~~~~|
~~~~~~~~~~~~+--CopyNumberSegmentationModel

Directly known subclasses:
CbsModel, GladModel, HaarSegModel

public abstract static class CopyNumberSegmentationModel
extends CopyNumberChromosomalModel

This abstract class represents a copy-number segmentation model.

Usage

CopyNumberSegmentationModel(...)

Arguments

... Arguments passed to constructor CopyNumberChromosomalModel.

Fields and Methods

Methods:
fit Fits the model.
getRegions -
getTags -
migrateTool -
plot -
plotCopyNumberRegionLayers -
writeRegions -

Methods inherited from CopyNumberChromosomalModel:
as.character, calculateChromosomeStatistics, clearCache, estimateSds, extractRawCopyNumbers, fit, getMatrixChipEffectFiles, getRawCnData, getReferenceSetTuple, getRefSetTuple, isPaired, newPlot, plotAxesLayers, plotChromosomesLayers, plotCytobandLayers, plotFitLayers, plotGridHorizontalLayers, plotRawCopyNumbers, plotSampleLayers

Methods inherited from ChromosomalModel:
as.character, clearCache, fit, getAlias, getArrays, getAsteriskTags, getChipEffectFiles, getChipType, getChipTypes, getChromosomes, getFullName, getFullNames, getGenome, getGenomeData, getGenomeFile, getListOfAromaUgpFiles, getListOfChipEffectSets, getListOfGenomeInformations, getName, getNames, getParentPath, getPath, getPcuTheta, getPositionChipTypeUnit, getReportPath, getRootPath, getSetTuple, getTableOfArrays, getTags, nbrOfArrays, nbrOfChipTypes, setAlias, setGenome

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

Author(s)

Henrik Bengtsson (http://www.braju.com/R/)


[Package aroma.affymetrix version 1.2.0 Index]