AvgCnPlm: The AvgCnPlm class

Description

Package: aroma.affymetrix Class AvgCnPlm

Object ~~| ~~+--ParametersInterface ~~~~~~~| ~~~~~~~+--Model ~~~~~~~~~~~~| ~~~~~~~~~~~~+--UnitModel ~~~~~~~~~~~~~~~~~| ~~~~~~~~~~~~~~~~~+--MultiArrayUnitModel ~~~~~~~~~~~~~~~~~~~~~~| ~~~~~~~~~~~~~~~~~~~~~~+--ProbeLevelModel ~~~~~~~~~~~~~~~~~~~~~~~~~~~| ~~~~~~~~~~~~~~~~~~~~~~~~~~~+--AvgPlm ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~+--AvgSnpPlm ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~+--SnpPlm ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~+--CnPlm ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~+--AvgCnPlm

Directly known subclasses:

public abstract static class AvgCnPlm extends CnPlm

Usage

AvgCnPlm(..., combineAlleles=FALSE)

Arguments

...

Arguments passed to AvgSnpPlm.

combineAlleles

If FALSE, allele A and allele B are treated seperately, otherwise together.

Fields and Methods

Methods: No methods defined. Methods inherited from CnPlm: getCellIndices, getChipEffectSet, getCombineAlleles, getParameters, getProbeAffinityFile, setCombineAlleles Methods inherited from SnpPlm: getCellIndices, getChipEffectSet, getMergeStrands, getParameters, getProbeAffinityFile, setMergeStrands Methods inherited from AvgSnpPlm: getAsteriskTags Methods inherited from AvgPlm: getAsteriskTags, getCalculateResidualsFunction, getParameters, validate Methods inherited from ProbeLevelModel: calculateResidualSet, calculateWeights, fit, getAsteriskTags, getCalculateResidualsFunction, getChipEffectSet, getProbeAffinityFile, getResidualSet, getRootPath, getWeightsSet Methods inherited from MultiArrayUnitModel: getListOfPriors, setListOfPriors, validate Methods inherited from UnitModel: findUnitsTodo, getAsteriskTags, getFitSingleCellUnitFunction, getParameters Methods inherited from Model: as.character, fit, getAlias, getAsteriskTags, getDataSet, getFullName, getName, getPath, getRootPath, getTags, setAlias, setTags Methods inherited from ParametersInterface: getParameterSets, getParameters, getParametersAsString Methods inherited from Object: $, $<-, [[, [[<-, as.character, attach, attachLocally, clearCache, clearLookupCache, clone, detach, equals, extend, finalize, getEnvironment, getFieldModifier, getFieldModifiers, getFields, getInstantiationTime, getStaticInstance, hasField, hashCode, ll, load, objectSize, print, save, asThis