aroma.affymetrix (version 2.2.0)

AffineCnPlm: The AffineCnPlm class

Description

Package: aroma.affymetrix Class AffineCnPlm Object ~~| ~~+--Model ~~~~~~~| ~~~~~~~+--UnitModel ~~~~~~~~~~~~| ~~~~~~~~~~~~+--MultiArrayUnitModel ~~~~~~~~~~~~~~~~~| ~~~~~~~~~~~~~~~~~+--ProbeLevelModel ~~~~~~~~~~~~~~~~~~~~~~| ~~~~~~~~~~~~~~~~~~~~~~+--AffinePlm ~~~~~~~~~~~~~~~~~~~~~~~~~~~| ~~~~~~~~~~~~~~~~~~~~~~~~~~~+--AffineSnpPlm ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~+--SnpPlm ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~+--CnPlm ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~+--AffineCnPlm Directly known subclasses: public static class AffineCnPlm extends CnPlm

Usage

AffineCnPlm(..., combineAlleles=FALSE)

Arguments

...

Arguments passed to AffineSnpPlm.

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, getProbeAffinityFile, setCombineAlleles Methods inherited from SnpPlm: getCellIndices, getChipEffectSet, getMergeStrands, getProbeAffinityFile, setMergeStrands Methods inherited from AffineSnpPlm: getAsteriskTags Methods inherited from AffinePlm: getAsteriskTags, getProbeAffinityFile Methods inherited from ProbeLevelModel: calculateResidualSet, calculateWeights, fit, getAsteriskTags, getCalculateResidualsFunction, getChipEffectSet, getProbeAffinityFile, getResidualSet, getWeightsSet Methods inherited from MultiArrayUnitModel: getListOfPriors, setListOfPriors, validate Methods inherited from UnitModel: findUnitsTodo, getAsteriskTags, getFitSingleCellUnitFunction Methods inherited from Model: fit, getAlias, getAsteriskTags, getDataSet, getFullName, getName, getPath, getRootPath, getTags, setAlias, setTags 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