ProbeLevelTransform: The ProbeLevelTransform class

In HenrikBengtsson/aroma.affymetrix: Analysis of Large Affymetrix Microarray Data Sets

The ProbeLevelTransform class

Description

Package: aroma.affymetrix
Class ProbeLevelTransform

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

Directly known subclasses:
AbstractProbeSequenceNormalization, AllelicCrosstalkCalibration, BackgroundCorrection, BaseCountNormalization, BasePositionNormalization, DChipQuantileNormalization, GcRmaBackgroundCorrection, LimmaBackgroundCorrection, LinearModelProbeSequenceNormalization, MatNormalization, MatSmoothing, NormExpBackgroundCorrection, OpticalBackgroundCorrection, ProbeLevelTransform3, QuantileNormalization, ReseqCrosstalkCalibration, RmaBackgroundCorrection, ScaleNormalization, ScaleNormalization3, SpatialRowColumnNormalization, UnitTypeScaleNormalization

public abstract static class ProbeLevelTransform
extends Transform

This abstract class represents a transformation methods that transforms probe-level signals, typically intensities.

Usage

ProbeLevelTransform(...)

Arguments

...	Arguments passed to the constructor of Transform.

Details

Subclasses must implement the process() method.

Fields and Methods

Methods:
No methods defined.

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)

Henrik Bengtsson

HenrikBengtsson/aroma.affymetrix documentation built on Feb. 20, 2024, 9:07 p.m.