Fields and Methods
Methods:
rll{
byChipType -
fromCdf -
getCdf -
getChipType -
getColumnNames -
getData -
translateFullName -
}
Methods inherited from AromaPlatformInterface:
getAromaPlatform, getAromaUgpFile, getPlatform, getUnitAnnotationDataFile, getUnitNamesFile, getUnitTypesFile, isCompatibleWith
Methods inherited from TabularTextFile:
[, as.character, getColumnNames, getCommentChar, getHeader, getReadArguments, hasColumnHeader, nbrOfLines, nbrOfRows, readColumnNames, readColumns, readDataFrame, readLines, readRawHeader, setCommentChar, writeColumnsToFiles
Methods inherited from GenericTabularFile:
as.character, dim, extractMatrix, getColumnNames, getColumnNameTranslator, nbrOfColumns, nbrOfRows, readColumns, readDataFrame, setColumnNameTranslator, translateColumnNames
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, saveAbout probe-tab files
Probe-tab files are provided by Affymetrix and contains information
on the probes. Note that not necessarily all probes are represented
in the files, e.g. typically only PM probes are given and MM are
left to be inferred from the PMs.
The below is an extract of the Mapping250K_Nsp_probe_tab file
obtained from the Affymetrix website. Note that columns are separated
by TABs.
SNP_A-1780270 1633 2398 3 TTGTTAAGCAAGTGAGTTATTTTAT f PM C
SNP_A-1780270 1633 2399 3 TTGTTAAGCAAGTGACTTATTTTAT f PM G
SNP_A-1780270 1951 1780 -4 GGATAAAATAAAATAACTCACTTGC r PM C
...
SNP_A-4241299 2553 1658 4 AAACACATTTTTGGGTCGTAAGGAA f PM G