AffymetrixFileSet: The AffymetrixFileSet class
Description
Package: aroma.affymetrix
Class AffymetrixFileSet
Object
~~|
~~+--FullNameInterface
~~~~~~~|
~~~~~~~+--GenericDataFileSet
~~~~~~~~~~~~|
~~~~~~~~~~~~+--AromaMicroarrayDataSet
~~~~~~~~~~~~~~~~~|
~~~~~~~~~~~~~~~~~+--AromaPlatformInterface
~~~~~~~~~~~~~~~~~~~~~~|
~~~~~~~~~~~~~~~~~~~~~~+--AffymetrixFileSet
Directly known subclasses:
AffymetrixCelSet, AffymetrixCnChpSet, ChipEffectSet, CnChipEffectSet, DChipDcpSet, ExonChipEffectSet, FirmaSet, ParameterCelSet, QualityAssessmentSet, ResidualSet, SnpChipEffectSet, WeightsSet
public abstract static class AffymetrixFileSet
extends AromaPlatformInterface
An AffymetrixFileSet object represents a set of AffymetrixFiles
with identical chip types.Usage
AffymetrixFileSet(files=NULL, ...)
Fields and Methods
Methods:
rll{
as -
as.AffymetrixFileSet Coerce an object to an AffymetrixFileSet object.
byPath Defines an AffymetrixFileSet object by searching for Affymetrix files.
getDefaultFullName -
}
Methods inherited from AromaPlatformInterface:
getAromaPlatform, getAromaUgpFile, getPlatform, getUnitAnnotationDataFile, getUnitNamesFile, getUnitTypesFile, isCompatibleWith
Methods inherited from AromaMicroarrayDataSet:
as.AromaMicroarrayDataSetList, as.AromaMicroarrayDataSetTuple, getAverageFile, getChipType, getDefaultFullName, getPlatform, nbrOfArrays, setAttributesBy, setAttributesBySampleAnnotationFile, setAttributesBySampleAnnotationSet, validate
Methods inherited from GenericDataFileSet:
getParentName, append, appendFiles, appendFullNamesTranslator, appendFullNamesTranslatorByfunction, appendFullNamesTranslatorBylist, appendFullNamesTranslatorByNULL, as.list, byName, byPath, clearCache, clearFullNamesTranslator, copyTo, equals, extract, findByName, getAlias, getDefaultFullName, getFile, getFileClass, getFileSize, getFullNames, getNames, getPath, getPathnames, hasFile, indexOf, lapply, nbrOfFiles, sapply, seq, setAlias, setFullNamesTranslator, update2, updateFullName, updateFullNames, validate
Methods inherited from FullNameInterface:
appendFullNameTranslator, appendFullNameTranslatorBycharacter, appendFullNameTranslatorByfunction, appendFullNameTranslatorBylist, appendFullNameTranslatorByNULL, clearFullNameTranslator, clearListOfFullNameTranslators, getDefaultFullName, getFullName, getFullNameTranslator, getListOfFullNameTranslators, getName, getTags, hasTag, hasTags, setFullName, setFullNameTranslator, setListOfFullNameTranslators, setName, setTags, updateFullName
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