BackgroundCorrection {aroma.affymetrix}

The BackgroundCorrection class

Description

Package: aroma.affymetrix
Class BackgroundCorrection

Object
~~|
~~+--ParametersInterface
~~~~~~~|
~~~~~~~+--AromaTransform
~~~~~~~~~~~~|
~~~~~~~~~~~~+--Transform
~~~~~~~~~~~~~~~~~|
~~~~~~~~~~~~~~~~~+--ProbeLevelTransform
~~~~~~~~~~~~~~~~~~~~~~|
~~~~~~~~~~~~~~~~~~~~~~+--BackgroundCorrection

Directly known subclasses:
GcRmaBackgroundCorrection, LimmaBackgroundCorrection, NormExpBackgroundCorrection, OpticalBackgroundCorrection, RmaBackgroundCorrection

public abstract static class BackgroundCorrection
extends ProbeLevelTransform

This class represents a background adjustment function.

Usage

BackgroundCorrection(..., subsetToUpdate=NULL, typesToUpdate=NULL)

Arguments

...

Arguments passed to the constructor of ProbeLevelTransform.

subsetToUpdate

The probes to be updated. If NULL, all probes are updated.

typesToUpdate

Types of probes to be updated.

Fields and Methods

Methods:

	process	-

Methods inherited from ProbeLevelTransform:
getRootPath

Methods inherited from Transform:
getOutputDataSet, getOutputFiles

Methods inherited from AromaTransform:
as.character, findFilesTodo, getAsteriskTags, getExpectedOutputFiles, getExpectedOutputFullnames, getFullName, getInputDataSet, getName, getOutputDataSet, getOutputDataSet0, getOutputFiles, getPath, getRootPath, getTags, isDone, process, 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, names, objectSize, print, save, asThis

Author(s)

Ken Simpson, Henrik Bengtsson