aroma.affymetrix (version 2.5.0)

NormExpBackgroundCorrection: The NormExpBackgroundCorrection class

Description

Package: aroma.affymetrix Class NormExpBackgroundCorrection Object ~~| ~~+--AromaTransform ~~~~~~~| ~~~~~~~+--Transform ~~~~~~~~~~~~| ~~~~~~~~~~~~+--ProbeLevelTransform ~~~~~~~~~~~~~~~~~| ~~~~~~~~~~~~~~~~~+--BackgroundCorrection ~~~~~~~~~~~~~~~~~~~~~~| ~~~~~~~~~~~~~~~~~~~~~~+--LimmaBackgroundCorrection ~~~~~~~~~~~~~~~~~~~~~~~~~~~| ~~~~~~~~~~~~~~~~~~~~~~~~~~~+--NormExpBackgroundCorrection Directly known subclasses: public static class NormExpBackgroundCorrection extends LimmaBackgroundCorrection This class represents the normal exponential background correction model. Estimators of the limma package is used.

Usage

NormExpBackgroundCorrection(..., method=c("rma", "saddle", "mle"))

Arguments

...

Arguments passed to the constructor of LimmaBackgroundCorrection.

method

The estimator used, cf. argument normexp.method of backgroundCorrect in limma for more details.

Fields and Methods

Methods: No methods defined. Methods inherited from LimmaBackgroundCorrection: process Methods inherited from BackgroundCorrection: process Methods inherited from Transform: getOutputDataSet, getOutputDataSetOLD20090509, getOutputFiles Methods inherited from AromaTransform: getExpectedOutputFiles, getExpectedOutputFullnames, getFullName, getInputDataSet, getName, getOutputDataSet, getOutputDataSet0, getOutputFiles, getPath, getTags, isDone, process, 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

See Also

Internally, backgroundCorrect is used.