Package: aroma.core Class AromaTabularBinaryFile
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
Directly known subclasses: AromaCellCpgFile, AromaCellPositionFile, AromaCellSequenceFile, AromaCellTabularBinaryFile, AromaMicroarrayTabularBinaryFile, AromaUflFile, AromaUgcFile, AromaUgpFile, AromaUnitCallFile, AromaUnitChromosomeTabularBinaryFile, AromaUnitFracBCnBinaryFile, AromaUnitGcContentFile, AromaUnitGenotypeCallFile, AromaUnitPscnBinaryFile, AromaUnitSignalBinaryFile, AromaUnitTabularBinaryFile, AromaUnitTotalCnBinaryFile, AromaUnitTypesFile
public abstract static class AromaTabularBinaryFile extends FileCacheKeyInterface
A AromaTabularBinaryFile represents a file with a binary format. It has a well defined header, a data section, and a footer.
AromaTabularBinaryFile(...)Arguments passed to GenericTabularFile.
Methods:
[ |
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[<- |
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colMeans |
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colSums |
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getBytesPerColumn |
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getColClasses |
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importFrom |
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nbrOfColumns |
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nbrOfRows |
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readColumns |
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readFooter |
Reads the file footer in XML format into a named nested list. | |
subset |
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summary |
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writeFooter |
Writes a named nested list to the file footer in XML format. |
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