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Object
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~~+--
Model
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~~~~~~~+--
UnitModel
~~~~~~~~~~~~|
~~~~~~~~~~~~+--
MultiArrayUnitModel
~~~~~~~~~~~~~~~~~|
~~~~~~~~~~~~~~~~~+--
ProbeLevelModel
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AvgPlm
Directly known subclasses:
AvgCnPlm, AvgSnpPlm
public static class AvgPlm
extends ProbeLevelModel
This class represents a PLM where the probe intensities are averaged
assuming identical probe affinities.
For instance, one may assume that replicated probes with identical
sequences have the same probe affinities, cf. the GenomeWideSNP_6
chip type.AvgPlm(..., flavor=c("median", "mean"))
ProbeLevelModel
.character
string specifying what model fitting algorithm
to be used. This makes it possible to get identical estimates as other
packages.getAsteriskTags
-
}
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, saveflavor="mean"
to fit the model non-robustly, i.e.
flavor="median"
to fit the model robustly, i.e.