Package: aroma.core Class AromaUnitTabularBinaryFile
Object
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~~+--FullNameInterface
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~~~~~~~+--GenericDataFile
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~~~~~~~~~~~~+--ColumnNamesInterface
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~~~~~~~~~~~~~~~~~+--GenericTabularFile
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~~~~~~~~~~~~~~~~~~~~~~+--CacheKeyInterface
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~~~~~~~~~~~~~~~~~~~~~~~~~~~+--FileCacheKeyInterface
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~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~+--AromaTabularBinaryFile
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~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~+--AromaPlatformInterface
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~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~+--AromaMicroarrayTabularBinaryFile
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~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~+--UnitAnnotationDataFile
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~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~+--AromaUnitTabularBinaryFile
Directly known subclasses: AromaUflFile, AromaUgcFile, AromaUgpFile, AromaUnitChromosomeTabularBinaryFile, AromaUnitGcContentFile
public abstract static class AromaUnitTabularBinaryFile extends UnitAnnotationDataFile
A AromaUnitTabularBinaryFile is an AromaTabularBinaryFile with
the constraint that the rows map one-to-one to, and in the same order as,
the units in a annotation chip type file (e.g. CDF file).
The (full) chip type of the annotation chip type file is given by the
mandatory file footer chipType.
AromaUnitTabularBinaryFile(...)Arguments passed to AromaTabularBinaryFile.
Methods:
byChipType |
- | |
nbrOfUnits |
- | |
writeDataFrame |
Writes the data file as a tab-delimited text file. |
Methods inherited from UnitAnnotationDataFile: byChipType, getAromaUflFile, getAromaUgpFile, getChipType, getDefaultExtension, getPlatform, nbrOfUnits
Methods inherited from AromaMicroarrayTabularBinaryFile: allocate, as.character, byChipType, findByChipType, getChipType, getFilenameExtension, getPlatform
Methods inherited from AromaPlatformInterface: getAromaPlatform, getAromaUflFile, getAromaUgpFile, getChipType, getPlatform, getUnitAnnotationDataFile, getUnitNamesFile, getUnitTypesFile, isCompatibleWith
Methods inherited from AromaTabularBinaryFile: [, [<-, [[, allocate, as.character, colApply, colMeans, colStats, colSums, dimnames<-, getBytesPerColumn, getColClasses, getDefaultColumnNames, getRootName, importFrom, nbrOfColumns, nbrOfRows, readColumns, readDataFrame, readFooter, readHeader, readRawFooter, setAttributesByTags, subset, summary, updateData, updateDataColumn, writeFooter, writeRawFooter
Methods inherited from FileCacheKeyInterface: getCacheKey
Methods inherited from CacheKeyInterface: getCacheKey
Methods inherited from GenericTabularFile: [, as.character, dim, extractMatrix, head, nbrOfColumns, nbrOfRows, readColumns, readDataFrame, tail, writeColumnsToFiles
Methods inherited from ColumnNamesInterface: appendColumnNamesTranslator, appendColumnNamesTranslatorByNULL, appendColumnNamesTranslatorBycharacter, appendColumnNamesTranslatorByfunction, appendColumnNamesTranslatorBylist, clearColumnNamesTranslator, clearListOfColumnNamesTranslators, getColumnNames, getColumnNamesTranslator, getDefaultColumnNames, getListOfColumnNamesTranslators, nbrOfColumns, setColumnNames, setColumnNamesTranslator, setListOfColumnNamesTranslators, updateColumnNames
Methods inherited from GenericDataFile: as.character, clone, compareChecksum, copyTo, equals, fromFile, getAttribute, getAttributes, getChecksum, getChecksumFile, getCreatedOn, getDefaultFullName, getExtension, getExtensionPattern, getFileSize, getFileType, getFilename, getFilenameExtension, getLastAccessedOn, getLastModifiedOn, getOutputExtension, getPath, getPathname, gunzip, gzip, hasBeenModified, is.na, isFile, isGzipped, linkTo, readChecksum, renameTo, renameToUpperCaseExt, setAttribute, setAttributes, setAttributesBy, setAttributesByTags, setExtensionPattern, testAttributes, validate, validateChecksum, writeChecksum, getParentName
Methods inherited from FullNameInterface: appendFullNameTranslator, appendFullNameTranslatorByNULL, appendFullNameTranslatorByTabularTextFile, appendFullNameTranslatorByTabularTextFileSet, appendFullNameTranslatorBycharacter, appendFullNameTranslatorBydata.frame, appendFullNameTranslatorByfunction, appendFullNameTranslatorBylist, clearFullNameTranslator, clearListOfFullNameTranslators, getDefaultFullName, getFullName, getFullNameTranslator, getListOfFullNameTranslators, getName, getTags, hasTag, hasTags, resetFullName, setFullName, setFullNameTranslator, setListOfFullNameTranslators, setName, setTags, updateFullName
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