UgpGenomeInformation: The UgpGenomeInformation class
Description
Package: aroma.affymetrix
Class UgpGenomeInformation
Object
~~|
~~+--FullNameInterface
~~~~~~~|
~~~~~~~+--GenericDataFile
~~~~~~~~~~~~|
~~~~~~~~~~~~+--GenomeInformation
~~~~~~~~~~~~~~~~~|
~~~~~~~~~~~~~~~~~+--UgpGenomeInformation
Directly known subclasses:
public abstract static class UgpGenomeInformation
extends GenomeInformation
This class represents Aroma UGP genome information files.Usage
UgpGenomeInformation(..., .ugp=NULL, .verify=TRUE)
Arguments
.ugp
For internal use only.
.verify
For internal use only.
Fields and Methods
Methods:
rll{
byChipType Defines a UgpGenomeInformation object by chip type.
clearCache -
getChipType -
getChromosomes -
getData -
getUnitsOnChromosome -
isCompatibleWithCdf -
nbrOfUnits -
readDataFrame -
}
Methods inherited from GenomeInformation:
byChipType, fromCdf, fromDataSet, getChipType, getChromosomes, getChromosomeStats, getData, getPositions, getUnitIndices, getUnitsOnChromosome, getUnitsOnChromosomes, isCompatibleWithCdf, nbrOfUnits, plotDensity, readDataFrame
Methods inherited from GenericDataFile:
getParentName, compareChecksum, copyTo, equals, fromFile, getAlias, getAttribute, getAttributes, getChecksum, getCreatedOn, getDefaultFullName, getExtension, getExtensionPattern, getFilename, getFilenameExtension, getFileSize, getFileType, getLastAccessedOn, getLastModifiedOn, getOutputExtension, getPath, getPathname, gunzip, gzip, hasBeenModified, isFile, readChecksum, renameTo, renameToUpperCaseExt, setAlias, setAttribute, setAttributes, setAttributesBy, setAttributesByTags, setExtensionPattern, testAttributes, validateChecksum, writeChecksum
Methods inherited from FullNameInterface:
appendFullNameTranslator, appendFullNameTranslatorBycharacter, appendFullNameTranslatorBydata.frame, appendFullNameTranslatorByfunction, appendFullNameTranslatorBylist, appendFullNameTranslatorByNULL, appendFullNameTranslatorByTabularTextFile, appendFullNameTranslatorByTabularTextFileSet, clearFullNameTranslator, clearListOfFullNameTranslators, getDefaultFullName, getFullName, getFullNameTranslator, getListOfFullNameTranslators, getName, getTags, hasTag, hasTags, setFullName, setFullNameTranslator, setListOfFullNameTranslators, setName, setTags, updateFullName
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