AffymetrixFile {aroma.affymetrix}R Documentation

The abstract AffymetrixFile class

Description

Package: aroma.affymetrix
Class AffymetrixFile

Object
~~|
~~+--GenericDataFile
~~~~~~~|
~~~~~~~+--AromaMicroarrayDataFile
~~~~~~~~~~~~|
~~~~~~~~~~~~+--AromaPlatformInterface
~~~~~~~~~~~~~~~~~|
~~~~~~~~~~~~~~~~~+--AffymetrixFile

Directly known subclasses:
AffymetrixCdfFile, AffymetrixCelFile, AffymetrixCnChpFile, AffymetrixTsvFile, AromaChipTypeAnnotationFile, ChipEffectFile, CnagCfhFile, CnChipEffectFile, CnProbeAffinityFile, DChipCdfBinFile, DChipDcpFile, ExonChipEffectFile, ExonProbeAffinityFile, FirmaFile, ParameterCelFile, ProbeAffinityFile, QualityAssessmentFile, ResidualFile, SnpChipEffectFile, SnpProbeAffinityFile, WeightsFile

public abstract static class AffymetrixFile
extends AromaPlatformInterface

An AffymetrixFile object represents a single Affymetrix file, e.g. an Affymetrix CEL file or an Affymetrix CDF file. Note that this class is abstract and can not be instanciated, but instead you have to use one of the subclasses or the generic fromFile() method.

Usage

AffymetrixFile(...)

Arguments

... Arguments passed to GenericDataFile.

Fields and Methods

Methods:
No methods defined.

Methods inherited from AromaPlatformInterface:
getAromaPlatform, getPlatform, getUnitAnnotationDataFile, getUnitNamesFile, getUnitTypesFile

Methods inherited from AromaMicroarrayDataFile:
getAttributeXY, getChipType, getPlatform, getPloidy, hasAttributeXY, setAttributesByTags, setAttributeXY

Methods inherited from GenericDataFile:
compareChecksum, copyTo, equals, fromFile, getAlias, getAttribute, getAttributes, getChecksum, getCreatedOn, getFilename, getFileSize, getFileType, getFullName, getFullNameTranslator, getLastAccessedOn, getLastModifiedOn, getName, getPath, getPathname, getTags, gunzip, gzip, hasBeenModified, hasTag, hasTags, isFile, readChecksum, renameTo, renameToUpperCaseExt, setAlias, setAttribute, setAttributes, setAttributesBy, setAttributesByTags, setFullName, setFullNameTranslator, setName, testAttributes, validateChecksum, writeChecksum

Methods inherited from Object:
asThis, $, $<-, [[, [[<-, as.character, attach, attachLocally, clearCache, clone, detach, equals, extend, finalize, gc, getEnvironment, getFields, getInstantiationTime, getStaticInstance, hasField, hashCode, ll, load, objectSize, print, registerFinalizer, save

Author(s)

Henrik Bengtsson (http://www.braju.com/R/)

See Also

An object of this class is typically part of an AffymetrixFileSet.


[Package aroma.affymetrix version 1.2.0 Index]