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aroma.affymetrix (version 2.5.0)

SmoothMultiarrayModel: The SmoothMultiarrayModel class

Description

Package: aroma.affymetrix Class SmoothMultiarrayModel Object ~~| ~~+--ChromosomalModel ~~~~~~~| ~~~~~~~+--SmoothMultiarrayModel Directly known subclasses: SmoothRmaModel, SmoothSaModel public abstract static class SmoothMultiarrayModel extends ChromosomalModel This abstract class represents a chromosomal smoothing method done chromosome by chromosome.

Usage

SmoothMultiarrayModel(..., typoOfWeights=c("none", "1/s2"), bandwidth=10000, tags="*")

Arguments

...
Arguments passed to the constructor of ChromosomalModel.
typoOfWeights
A character string.
bandwidth
A single numeric specifying the smoothing bandwidth in units of nucleotides.
tags
A character vector of tags to be added.

Fields and Methods

Methods: rll{ clearCache - createOutputTuple - fitOneChromosome - getBandwidth - getFitUnitGroupFunction - getOutputTuple - getRootPath - setBandwidth - } Methods inherited from ChromosomalModel: getListOfGenomeInformations, getPcuTheta, getPositionChipTypeUnit, as.character, clearCache, fit, getAlias, getAromaGenomeTextFile, getAsteriskTags, getChipType, getChipTypes, getChromosomes, getFullName, getFullNames, getGenome, getGenomeData, getGenomeFile, getListOfAromaUgpFiles, getName, getNames, getParentPath, getPath, getReportPath, getRootPath, getSets, getSetTuple, getTags, indexOf, nbrOfArrays, nbrOfChipTypes, setGenome Methods inherited from Object: asThis, getChecksum, $, $<-, [[, [[<-, as.character, attach, attachLocally, clearCache, clearLookupCache, clone, detach, equals, extend, finalize, gc, getEnvironment, getFieldModifier, getFieldModifiers, getFields, getInstantiationTime, getStaticInstance, hasField, hashCode, ll, load, objectSize, print, registerFinalizer, save

See Also

CopyNumberSegmentationModel.