affxparser: Affymetrix File Parsing SDK

Package for parsing Affymetrix files (CDF, CEL, CHP, BPMAP, BAR). It provides methods for fast and memory efficient parsing of Affymetrix files using the Affymetrix' Fusion SDK. Both ASCII- and binary-based files are supported. Currently, there are methods for reading chip definition file (CDF) and a cell intensity file (CEL). These files can be read either in full or in part. For example, probe signals from a few probesets can be extracted very quickly from a set of CEL files into a convenient list structure.

Author
Henrik Bengtsson [aut], James Bullard [aut], Robert Gentleman [ctb], Kasper Daniel Hansen [aut, cre], Jim Hester [ctb], Martin Morgan [ctb]
Date of publication
None
Maintainer
Kasper Daniel Hansen <kasperdanielhansen@gmail.com>
License
LGPL (>= 2)
Version
1.46.0
URLs

View on Bioconductor

Man pages

1._Dictionary
1. Dictionary
2._Cell_coordinates_and_cell_indices
2. Cell coordinates and cell indices
9._Advanced_-_Cell-index_maps_for_reading_and_writing
9. Advanced - Cell-index maps for reading and writing
affxparser-package
Package affxparser
applyCdfGroupFields
Applies a function to a list of fields of each group in a CDF...
applyCdfGroups
Applies a function over the groups in a CDF structure
arrangeCelFilesByChipType
Moves CEL files to subdirectories with names corresponding to...
cdfAddBaseMmCounts
Adds the number of allele A and allele B mismatching...
cdfAddPlasqTypes
Adds the PLASQ types for the probes in a CDF structure
cdfAddProbeOffsets
Adds probe offsets to the groups in a CDF structure
cdfGetFields
Gets a subset of groups fields in a CDF structure
cdfGetGroups
Gets a subset of groups in a CDF structure
cdfGtypeCelToPQ
Function to immitate Affymetrix' gtype\_cel\_to\_pq software
cdfHeaderToCelHeader
Creates a valid CEL header from a CDF header
cdfMergeAlleles
Function to join CDF allele A and allele B groups strand by...
cdfMergeStrands
Function to join CDF groups with the same names
cdfMergeToQuartets
Function to re-arrange CDF groups values in quartets
cdfOrderBy
Orders the fields according to the value of another field in...
cdfOrderColumnsBy
Orders the columns of fields according to the values in a...
cdfSetDimension
Sets the dimension of an object
compareCdfs
Compares the contents of two CDF files
compareCels
Compares the contents of two CEL files
convertCdf
Converts a CDF into the same CDF but with another format
convertCel
Converts a CEL into the same CEL but with another format
copyCel
Copies a CEL file
createCel
Creates an empty CEL file
findCdf
Search for CDF files in multiple directories
findFiles
Finds one or several files in multiple directories
invertMap
Inverts a read or a write map
isCelFile
Checks if a file is a CEL file or not
parseDatHeaderString
Parses a DAT header string
readBpmap
Parses a Bpmap file
readCcg
Reads an Affymetrix Command Console Generic (CCG) Data file
readCcgHeader
Reads an the header of an Affymetrix Command Console Generic...
readCdf
Parsing a CDF file using Affymetrix Fusion SDK
readCdfCellIndices
Reads (one-based) cell indices of units (probesets) in an...
readCdfDataFrame
Reads units (probesets) from an Affymetrix CDF file
readCdfGroupNames
Reads group names for a set of units (probesets) in an...
readCdfHeader
Reads the header associated with an Affymetrix CDF file
readCdfIsPm
Checks if cells in a CDF file are perfect-match probes or not
readCdfNbrOfCellsPerUnitGroup
Gets the number of cells (probes) that each group of each...
readCdfQc
Reads the QC units of CDF file
readCdfUnitNames
Reads unit (probeset) names from an Affymetrix CDF file
readCdfUnits
Reads units (probesets) from an Affymetrix CDF file
readCdfUnitsWriteMap
Generates an Affymetrix cell-index write map from a CDF file
readCel
Reads an Affymetrix CEL file
readCelHeader
Parsing the header of an Affymetrix CEL file
readCelIntensities
Reads the intensities contained in several Affymetrix CEL...
readCelRectangle
Reads a spatial subset of probe-level data from Affymetrix...
readCelUnits
Reads probe-level data ordered as units (probesets) from one...
readChp
A function to read Affymetrix CHP files
readClf
Parsing a CLF file using Affymetrix Fusion SDK
readClfEnv
Parsing a CLF file using Affymetrix Fusion SDK
readClfHeader
Read the header of a CLF file.
readPgf
Parsing a PGF file using Affymetrix Fusion SDK
readPgfEnv
Parsing a PGF file using Affymetrix Fusion SDK
readPgfHeader
Read the header of a PGF file into a list.
updateCel
Updates a CEL file
updateCelUnits
Updates a CEL file unit by unit
writeCdf
Creates a binary CDF file
writeCdfHeader
Writes a CDF header
writeCdfQcUnits
Writes CDF QC units
writeCdfUnits
Writes CDF units
writeCelHeader
Writes a CEL header to a connection
writeTpmap
Writes BPMAP and TPMAP files.

Files in this package

affxparser/DESCRIPTION
affxparser/NAMESPACE
affxparser/NEWS
affxparser/R
affxparser/R/901.Dictionary.R
affxparser/R/902.CellCoordinatesAndIndices.R
affxparser/R/909.CellIndexMaps.R
affxparser/R/applyCdfBlocks.R
affxparser/R/applyCdfGroupFields.R
affxparser/R/applyCdfGroups.R
affxparser/R/arrangeCelFilesByChipType.R
affxparser/R/cdfAddBaseMmCounts.R
affxparser/R/cdfAddPlasqTypes.R
affxparser/R/cdfAddProbeOffsets.R
affxparser/R/cdfGetFields.R
affxparser/R/cdfGetGroups.R
affxparser/R/cdfGtypeCelToPQ.R
affxparser/R/cdfHeaderToCelHeader.R
affxparser/R/cdfMergeAlleles.R
affxparser/R/cdfMergeStrands.R
affxparser/R/cdfMergeToQuartets.R
affxparser/R/cdfOrderBy.R
affxparser/R/cdfOrderColumnsBy.R
affxparser/R/cdfSetDimension.R
affxparser/R/compareCdfs.R
affxparser/R/compareCels.R
affxparser/R/convertCdf.R
affxparser/R/convertCel.R
affxparser/R/copyCel.R
affxparser/R/createCel.R
affxparser/R/findCdf.R
affxparser/R/findFiles.R
affxparser/R/invertMap.R
affxparser/R/isCelFile.R
affxparser/R/parseDatHeaderString.R
affxparser/R/private.assertMap.R
affxparser/R/private.readCelHeaderV3.R
affxparser/R/private.readCelHeaderV4.R
affxparser/R/private.unwrapCelHeaderV4.R
affxparser/R/private.wrapCelHeaderV4.R
affxparser/R/readBpmap.R
affxparser/R/readBpmapHeader.R
affxparser/R/readBpmapSeqInfo.R
affxparser/R/readCcg.R
affxparser/R/readCcgHeader.R
affxparser/R/readCdf.R
affxparser/R/readCdfCellIndices.R
affxparser/R/readCdfDataFrame.R
affxparser/R/readCdfGroupNames.R
affxparser/R/readCdfHeader.R
affxparser/R/readCdfIsPm.R
affxparser/R/readCdfNbrOfCellsPerUnitGroup.R
affxparser/R/readCdfQc.R
affxparser/R/readCdfUnitNames.R
affxparser/R/readCdfUnits.R
affxparser/R/readCdfUnitsWriteMap.R
affxparser/R/readCel.R
affxparser/R/readCelHeader.R
affxparser/R/readCelIntensities.R
affxparser/R/readCelRectangle.R
affxparser/R/readCelUnits.R
affxparser/R/readChp.R
affxparser/R/readClf.R
affxparser/R/readPgf.R
affxparser/R/testWriteAndReadEmptyCdf.R
affxparser/R/testWriteAndReadEmptyCel.R
affxparser/R/tpmap2bpmap.R
affxparser/R/traverseCcg.R
affxparser/R/updateCel.R
affxparser/R/updateCelUnits.R
affxparser/R/writeCcg.R
affxparser/R/writeCdf.R
affxparser/R/writeCdf.private.R
affxparser/R/writeCdfHeader.R
affxparser/R/writeCdfQcUnits.R
affxparser/R/writeCdfUnits.R
affxparser/R/writeCelHeader.R
affxparser/R/writeTpmap.R
affxparser/R/zzz.R
affxparser/cleanup
affxparser/inst
affxparser/inst/extras
affxparser/inst/extras/easternEgg.gz
affxparser/inst/info
affxparser/inst/info/Makefile
affxparser/inst/info/changes2fusion.txt
affxparser/inst/info/fusion_1.1.0_patches
affxparser/inst/info/fusion_1.1.0_patches/AffxByteArray.cpp-patch
affxparser/inst/info/fusion_1.1.0_patches/AffxConv.cpp-patch
affxparser/inst/info/fusion_1.1.0_patches/AffymetrixBaseTypes.h-patch
affxparser/inst/info/fusion_1.1.0_patches/CDFFileData.cpp-patch
affxparser/inst/info/fusion_1.1.0_patches/affy-base-types.h-patch
affxparser/inst/info/fusion_1.1.0_patches/gcc-4.7.cpp-patch
affxparser/inst/info/fusion_1.1.2_patches
affxparser/inst/info/fusion_1.1.2_patches/AffxByteArray.cpp-patch
affxparser/inst/info/fusion_1.1.2_patches/AffxConv.cpp-patch
affxparser/inst/info/fusion_1.1.2_patches/AffxConv.cpp-patch2
affxparser/inst/info/fusion_1.1.2_patches/AffymetrixBaseTypes.h-patch
affxparser/inst/info/fusion_1.1.2_patches/CDFFileData.cpp-patch
affxparser/inst/info/fusion_1.1.2_patches/CELFileData.h-patch
affxparser/inst/info/fusion_1.1.2_patches/CHPMultiDataData.cpp-patch
affxparser/inst/info/fusion_1.1.2_patches/FileUtils.cpp-patch
affxparser/inst/info/fusion_1.1.2_patches/Fs.cpp-patch
affxparser/inst/info/fusion_1.1.2_patches/TsvFile.cpp-patch
affxparser/inst/info/fusion_1.1.2_patches/Util.cpp-patch
affxparser/inst/info/fusion_1.1.2_patches/Verbose.cpp-patch
affxparser/inst/info/fusion_1.1.2_patches/affy-base-types.h-patch
affxparser/inst/info/fusion_sdk_license.html
affxparser/inst/testscripts
affxparser/inst/testscripts/manualTest.R
affxparser/inst/testscripts/speedtest.R
affxparser/inst/testscripts/writeAndReadEmptyCdf.R
affxparser/inst/testscripts/writeAndReadEmptyCel.R
affxparser/man
affxparser/man/1._Dictionary.Rd
affxparser/man/2._Cell_coordinates_and_cell_indices.Rd
affxparser/man/9._Advanced_-_Cell-index_maps_for_reading_and_writing.Rd
affxparser/man/affxparser-package.Rd
affxparser/man/applyCdfGroupFields.Rd
affxparser/man/applyCdfGroups.Rd
affxparser/man/arrangeCelFilesByChipType.Rd
affxparser/man/cdfAddBaseMmCounts.Rd
affxparser/man/cdfAddPlasqTypes.Rd
affxparser/man/cdfAddProbeOffsets.Rd
affxparser/man/cdfGetFields.Rd
affxparser/man/cdfGetGroups.Rd
affxparser/man/cdfGtypeCelToPQ.Rd
affxparser/man/cdfHeaderToCelHeader.Rd
affxparser/man/cdfMergeAlleles.Rd
affxparser/man/cdfMergeStrands.Rd
affxparser/man/cdfMergeToQuartets.Rd
affxparser/man/cdfOrderBy.Rd
affxparser/man/cdfOrderColumnsBy.Rd
affxparser/man/cdfSetDimension.Rd
affxparser/man/compareCdfs.Rd
affxparser/man/compareCels.Rd
affxparser/man/convertCdf.Rd
affxparser/man/convertCel.Rd
affxparser/man/copyCel.Rd
affxparser/man/createCel.Rd
affxparser/man/findCdf.Rd
affxparser/man/findFiles.Rd
affxparser/man/invertMap.Rd
affxparser/man/isCelFile.Rd
affxparser/man/parseDatHeaderString.Rd
affxparser/man/readBpmap.Rd
affxparser/man/readCcg.Rd
affxparser/man/readCcgHeader.Rd
affxparser/man/readCdf.Rd
affxparser/man/readCdfCellIndices.Rd
affxparser/man/readCdfDataFrame.Rd
affxparser/man/readCdfGroupNames.Rd
affxparser/man/readCdfHeader.Rd
affxparser/man/readCdfIsPm.Rd
affxparser/man/readCdfNbrOfCellsPerUnitGroup.Rd
affxparser/man/readCdfQc.Rd
affxparser/man/readCdfUnitNames.Rd
affxparser/man/readCdfUnits.Rd
affxparser/man/readCdfUnitsWriteMap.Rd
affxparser/man/readCel.Rd
affxparser/man/readCelHeader.Rd
affxparser/man/readCelIntensities.Rd
affxparser/man/readCelRectangle.Rd
affxparser/man/readCelUnits.Rd
affxparser/man/readChp.Rd
affxparser/man/readClf.Rd
affxparser/man/readClfEnv.Rd
affxparser/man/readClfHeader.Rd
affxparser/man/readPgf.Rd
affxparser/man/readPgfEnv.Rd
affxparser/man/readPgfHeader.Rd
affxparser/man/updateCel.Rd
affxparser/man/updateCelUnits.Rd
affxparser/man/writeCdf.Rd
affxparser/man/writeCdfHeader.Rd
affxparser/man/writeCdfQcUnits.Rd
affxparser/man/writeCdfUnits.Rd
affxparser/man/writeCelHeader.Rd
affxparser/man/writeTpmap.Rd
affxparser/src
affxparser/src/Makevars
affxparser/src/Makevars.win
affxparser/src/RAffxErrHandler.h
affxparser/src/R_affx_bpmap_parser.cpp
affxparser/src/R_affx_cdf_extras.cpp
affxparser/src/R_affx_cdf_extras.h
affxparser/src/R_affx_cdf_parser.cpp
affxparser/src/R_affx_cel_parser.cpp
affxparser/src/R_affx_chp_parser.cpp
affxparser/src/R_affx_clf_pgf_parser.cpp
affxparser/src/R_affx_constants.h
affxparser/src/R_affx_test_bpmap_cmdline.cpp
affxparser/src/R_affx_test_cdfwriter_cmdline.cpp
affxparser/src/R_affx_test_celwriter_cmdline.cpp
affxparser/src/R_affx_test_cmd_line.cpp
affxparser/src/_mingw.h
affxparser/src/_mingw_gcc463.h
affxparser/src/_mingw_gcc493.h
affxparser/src/fusion_sdk
affxparser/src/fusion_sdk/calvin_files
affxparser/src/fusion_sdk/calvin_files/array
affxparser/src/fusion_sdk/calvin_files/array/src
affxparser/src/fusion_sdk/calvin_files/array/src/ArrayAttributes.cpp
affxparser/src/fusion_sdk/calvin_files/array/src/ArrayAttributes.h
affxparser/src/fusion_sdk/calvin_files/array/src/ArrayAudit.cpp
affxparser/src/fusion_sdk/calvin_files/array/src/ArrayAudit.h
affxparser/src/fusion_sdk/calvin_files/array/src/ArrayAuditActionTypes.h
affxparser/src/fusion_sdk/calvin_files/array/src/ArrayData.cpp
affxparser/src/fusion_sdk/calvin_files/array/src/ArrayData.h
affxparser/src/fusion_sdk/calvin_files/array/src/ArrayId.h
affxparser/src/fusion_sdk/calvin_files/array/src/ArrayMedia.cpp
affxparser/src/fusion_sdk/calvin_files/array/src/ArrayMedia.h
affxparser/src/fusion_sdk/calvin_files/array/src/CreateStep.cpp
affxparser/src/fusion_sdk/calvin_files/array/src/CreateStep.h
affxparser/src/fusion_sdk/calvin_files/array/src/PATAssignment.cpp
affxparser/src/fusion_sdk/calvin_files/array/src/PATAssignment.h
affxparser/src/fusion_sdk/calvin_files/data
affxparser/src/fusion_sdk/calvin_files/data/src
affxparser/src/fusion_sdk/calvin_files/data/src/AllelePeaks.h
affxparser/src/fusion_sdk/calvin_files/data/src/CDFData.cpp
affxparser/src/fusion_sdk/calvin_files/data/src/CDFData.h
affxparser/src/fusion_sdk/calvin_files/data/src/CDFDataTypes.h
affxparser/src/fusion_sdk/calvin_files/data/src/CDFProbeGroupInformation.cpp
affxparser/src/fusion_sdk/calvin_files/data/src/CDFProbeGroupInformation.h
affxparser/src/fusion_sdk/calvin_files/data/src/CDFProbeInformation.cpp
affxparser/src/fusion_sdk/calvin_files/data/src/CDFProbeInformation.h
affxparser/src/fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.cpp
affxparser/src/fusion_sdk/calvin_files/data/src/CDFProbeSetInformation.h
affxparser/src/fusion_sdk/calvin_files/data/src/CDFQCProbeInformation.cpp
affxparser/src/fusion_sdk/calvin_files/data/src/CDFQCProbeInformation.h
affxparser/src/fusion_sdk/calvin_files/data/src/CDFQCProbeSetInformation.cpp
affxparser/src/fusion_sdk/calvin_files/data/src/CDFQCProbeSetInformation.h
affxparser/src/fusion_sdk/calvin_files/data/src/CELData.cpp
affxparser/src/fusion_sdk/calvin_files/data/src/CELData.h
affxparser/src/fusion_sdk/calvin_files/data/src/CHPBackgroundZone.cpp
affxparser/src/fusion_sdk/calvin_files/data/src/CHPBackgroundZone.h
affxparser/src/fusion_sdk/calvin_files/data/src/CHPData.cpp
affxparser/src/fusion_sdk/calvin_files/data/src/CHPData.h
affxparser/src/fusion_sdk/calvin_files/data/src/CHPExpressionEntry.cpp
affxparser/src/fusion_sdk/calvin_files/data/src/CHPExpressionEntry.h
affxparser/src/fusion_sdk/calvin_files/data/src/CHPGenotypeEntry.cpp
affxparser/src/fusion_sdk/calvin_files/data/src/CHPGenotypeEntry.h
affxparser/src/fusion_sdk/calvin_files/data/src/CHPMultiDataData.cpp
affxparser/src/fusion_sdk/calvin_files/data/src/CHPMultiDataData.h
affxparser/src/fusion_sdk/calvin_files/data/src/CHPQuantificationData.cpp
affxparser/src/fusion_sdk/calvin_files/data/src/CHPQuantificationData.h
affxparser/src/fusion_sdk/calvin_files/data/src/CHPQuantificationDetectionData.cpp
affxparser/src/fusion_sdk/calvin_files/data/src/CHPQuantificationDetectionData.h
affxparser/src/fusion_sdk/calvin_files/data/src/CHPReseqEntry.h
affxparser/src/fusion_sdk/calvin_files/data/src/CHPTilingData.cpp
affxparser/src/fusion_sdk/calvin_files/data/src/CHPTilingData.h
affxparser/src/fusion_sdk/calvin_files/data/src/CHPTilingEntry.h
affxparser/src/fusion_sdk/calvin_files/data/src/CHPUniversalEntry.cpp
affxparser/src/fusion_sdk/calvin_files/data/src/CHPUniversalEntry.h
affxparser/src/fusion_sdk/calvin_files/data/src/ChromosomeMultiDataSummaryData.h
affxparser/src/fusion_sdk/calvin_files/data/src/ChromosomeSegmentMultiDataData.h
affxparser/src/fusion_sdk/calvin_files/data/src/ColumnInfo.cpp
affxparser/src/fusion_sdk/calvin_files/data/src/ColumnInfo.h
affxparser/src/fusion_sdk/calvin_files/data/src/CytoGenotypeCallMultiDataData.h
affxparser/src/fusion_sdk/calvin_files/data/src/DATData.cpp
affxparser/src/fusion_sdk/calvin_files/data/src/DATData.h
affxparser/src/fusion_sdk/calvin_files/data/src/DataException.cpp
affxparser/src/fusion_sdk/calvin_files/data/src/DataException.h
affxparser/src/fusion_sdk/calvin_files/data/src/DataGroup.cpp
affxparser/src/fusion_sdk/calvin_files/data/src/DataGroup.h
affxparser/src/fusion_sdk/calvin_files/data/src/DataGroupHeader.cpp
affxparser/src/fusion_sdk/calvin_files/data/src/DataGroupHeader.h
affxparser/src/fusion_sdk/calvin_files/data/src/DataSet.cpp
affxparser/src/fusion_sdk/calvin_files/data/src/DataSet.h
affxparser/src/fusion_sdk/calvin_files/data/src/DataSetHeader.cpp
affxparser/src/fusion_sdk/calvin_files/data/src/DataSetHeader.h
affxparser/src/fusion_sdk/calvin_files/data/src/FamilialMultiDataData.h
affxparser/src/fusion_sdk/calvin_files/data/src/FileHeader.cpp
affxparser/src/fusion_sdk/calvin_files/data/src/FileHeader.h
affxparser/src/fusion_sdk/calvin_files/data/src/GenericData.cpp
affxparser/src/fusion_sdk/calvin_files/data/src/GenericData.h
affxparser/src/fusion_sdk/calvin_files/data/src/GenericDataHeader.cpp
affxparser/src/fusion_sdk/calvin_files/data/src/GenericDataHeader.h
affxparser/src/fusion_sdk/calvin_files/data/src/GenericDataTypes.h
affxparser/src/fusion_sdk/calvin_files/data/src/MarkerABSignals.h
affxparser/src/fusion_sdk/calvin_files/data/src/MemMapFile.cpp
affxparser/src/fusion_sdk/calvin_files/data/src/MemMapFile.h
affxparser/src/fusion_sdk/calvin_files/data/src/ProbeSetMultiDataData.cpp
affxparser/src/fusion_sdk/calvin_files/data/src/ProbeSetMultiDataData.h
affxparser/src/fusion_sdk/calvin_files/data/src/ProbeSetQuantificationData.h
affxparser/src/fusion_sdk/calvin_files/data/src/ProbeSetQuantificationDetectionData.h
affxparser/src/fusion_sdk/calvin_files/data/src/TilingResultData.h
affxparser/src/fusion_sdk/calvin_files/exception
affxparser/src/fusion_sdk/calvin_files/exception/src
affxparser/src/fusion_sdk/calvin_files/exception/src/DevelopmentException.cpp
affxparser/src/fusion_sdk/calvin_files/exception/src/DevelopmentException.h
affxparser/src/fusion_sdk/calvin_files/exception/src/ExceptionBase.cpp
affxparser/src/fusion_sdk/calvin_files/exception/src/ExceptionBase.h
affxparser/src/fusion_sdk/calvin_files/exception/src/InterpretationException.cpp
affxparser/src/fusion_sdk/calvin_files/exception/src/InterpretationException.h
affxparser/src/fusion_sdk/calvin_files/fusion
affxparser/src/fusion_sdk/calvin_files/fusion/src
affxparser/src/fusion_sdk/calvin_files/fusion/src/CalvinAdapter
affxparser/src/fusion_sdk/calvin_files/fusion/src/CalvinAdapter/CalvinCELDataAdapter.cpp
affxparser/src/fusion_sdk/calvin_files/fusion/src/CalvinAdapter/CalvinCELDataAdapter.h
affxparser/src/fusion_sdk/calvin_files/fusion/src/CalvinAdapter/CalvinCHPDataAdapter.cpp
affxparser/src/fusion_sdk/calvin_files/fusion/src/CalvinAdapter/CalvinCHPDataAdapter.h
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionArrayFileReader.cpp
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionArrayFileReader.h
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionBARData.cpp
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionBARData.h
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionBEDData.cpp
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionBEDData.h
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionBPMAPData.cpp
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionBPMAPData.h
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionCDFData.cpp
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionCDFData.h
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionCDFQCProbeSetNames.cpp
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionCDFQCProbeSetNames.h
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionCELData.cpp
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionCELData.h
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionCELDataAdapterInterface.h
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionCHPData.cpp
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionCHPData.h
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionCHPDataAdapterInterface.h
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionCHPGenericData.cpp
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionCHPGenericData.h
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionCHPLegacyData.cpp
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionCHPLegacyData.h
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionCHPMultiDataAccessor.cpp
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionCHPMultiDataAccessor.h
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionCHPMultiDataData.cpp
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionCHPMultiDataData.h
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionCHPQuantificationData.cpp
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionCHPQuantificationData.h
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionCHPQuantificationDetectionData.cpp
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionCHPQuantificationDetectionData.h
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionCHPTilingData.cpp
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionCHPTilingData.h
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionCoords.h
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionGRDData.cpp
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionGRDData.h
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionGrcFileReader.cpp
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionGrcFileReader.h
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionMSKData.cpp
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionMSKData.h
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionPSIData.cpp
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionPSIData.h
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionProbeSetResults.cpp
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionProbeSetResults.h
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionSMDData.cpp
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionSMDData.h
affxparser/src/fusion_sdk/calvin_files/fusion/src/FusionTagValuePairType.h
affxparser/src/fusion_sdk/calvin_files/fusion/src/GCOSAdapter
affxparser/src/fusion_sdk/calvin_files/fusion/src/GCOSAdapter/GCOSCELDataAdapter.cpp
affxparser/src/fusion_sdk/calvin_files/fusion/src/GCOSAdapter/GCOSCELDataAdapter.h
affxparser/src/fusion_sdk/calvin_files/fusion/src/GCOSAdapter/GCOSCHPDataAdapter.cpp
affxparser/src/fusion_sdk/calvin_files/fusion/src/GCOSAdapter/GCOSCHPDataAdapter.h
affxparser/src/fusion_sdk/calvin_files/fusion/src/fusionexception.h
affxparser/src/fusion_sdk/calvin_files/parameter
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affxparser/src/fusion_sdk/calvin_files/parameter/src/AffymetrixParameterConsts.h
affxparser/src/fusion_sdk/calvin_files/parameter/src/CELAlgorithmParameterNames.h
affxparser/src/fusion_sdk/calvin_files/parameter/src/Parameter.h
affxparser/src/fusion_sdk/calvin_files/parameter/src/ParameterException.cpp
affxparser/src/fusion_sdk/calvin_files/parameter/src/ParameterException.h
affxparser/src/fusion_sdk/calvin_files/parameter/src/ParameterFileData.cpp
affxparser/src/fusion_sdk/calvin_files/parameter/src/ParameterFileData.h
affxparser/src/fusion_sdk/calvin_files/parameter/src/ParameterNameValueType.cpp
affxparser/src/fusion_sdk/calvin_files/parameter/src/ParameterNameValueType.h
affxparser/src/fusion_sdk/calvin_files/parsers
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affxparser/src/fusion_sdk/calvin_files/parsers/src/ArrayFileReader.cpp
affxparser/src/fusion_sdk/calvin_files/parsers/src/ArrayFileReader.h
affxparser/src/fusion_sdk/calvin_files/parsers/src/AuditFileConstants.h
affxparser/src/fusion_sdk/calvin_files/parsers/src/AuditFileReader.cpp
affxparser/src/fusion_sdk/calvin_files/parsers/src/AuditFileReader.h
affxparser/src/fusion_sdk/calvin_files/parsers/src/CDFFileReader.cpp
affxparser/src/fusion_sdk/calvin_files/parsers/src/CDFFileReader.h
affxparser/src/fusion_sdk/calvin_files/parsers/src/CHPFileReader.cpp
affxparser/src/fusion_sdk/calvin_files/parsers/src/CHPFileReader.h
affxparser/src/fusion_sdk/calvin_files/parsers/src/CHPMultiDataFileReader.cpp
affxparser/src/fusion_sdk/calvin_files/parsers/src/CHPMultiDataFileReader.h
affxparser/src/fusion_sdk/calvin_files/parsers/src/CHPQuantificationDetectionFileReader.cpp
affxparser/src/fusion_sdk/calvin_files/parsers/src/CHPQuantificationDetectionFileReader.h
affxparser/src/fusion_sdk/calvin_files/parsers/src/CHPQuantificationFileReader.cpp
affxparser/src/fusion_sdk/calvin_files/parsers/src/CHPQuantificationFileReader.h
affxparser/src/fusion_sdk/calvin_files/parsers/src/CHPTilingFileReader.cpp
affxparser/src/fusion_sdk/calvin_files/parsers/src/CHPTilingFileReader.h
affxparser/src/fusion_sdk/calvin_files/parsers/src/CelFileReader.cpp
affxparser/src/fusion_sdk/calvin_files/parsers/src/CelFileReader.h
affxparser/src/fusion_sdk/calvin_files/parsers/src/DATFileReader.cpp
affxparser/src/fusion_sdk/calvin_files/parsers/src/DATFileReader.h
affxparser/src/fusion_sdk/calvin_files/parsers/src/DataGroupHeaderReader.cpp
affxparser/src/fusion_sdk/calvin_files/parsers/src/DataGroupHeaderReader.h
affxparser/src/fusion_sdk/calvin_files/parsers/src/DataGroupReader.cpp
affxparser/src/fusion_sdk/calvin_files/parsers/src/DataGroupReader.h
affxparser/src/fusion_sdk/calvin_files/parsers/src/DataSetHeaderReader.cpp
affxparser/src/fusion_sdk/calvin_files/parsers/src/DataSetHeaderReader.h
affxparser/src/fusion_sdk/calvin_files/parsers/src/DataSetReader.cpp
affxparser/src/fusion_sdk/calvin_files/parsers/src/DataSetReader.h
affxparser/src/fusion_sdk/calvin_files/parsers/src/FileException.cpp
affxparser/src/fusion_sdk/calvin_files/parsers/src/FileException.h
affxparser/src/fusion_sdk/calvin_files/parsers/src/FileHeaderReader.cpp
affxparser/src/fusion_sdk/calvin_files/parsers/src/FileHeaderReader.h
affxparser/src/fusion_sdk/calvin_files/parsers/src/FileInput.cpp
affxparser/src/fusion_sdk/calvin_files/parsers/src/FileInput.h
affxparser/src/fusion_sdk/calvin_files/parsers/src/GenericDataHeaderReader.cpp
affxparser/src/fusion_sdk/calvin_files/parsers/src/GenericDataHeaderReader.h
affxparser/src/fusion_sdk/calvin_files/parsers/src/GenericFileReader.cpp
affxparser/src/fusion_sdk/calvin_files/parsers/src/GenericFileReader.h
affxparser/src/fusion_sdk/calvin_files/parsers/src/GridControlFileReader.cpp
affxparser/src/fusion_sdk/calvin_files/parsers/src/GridControlFileReader.h
affxparser/src/fusion_sdk/calvin_files/parsers/src/ParameterFileReader.cpp
affxparser/src/fusion_sdk/calvin_files/parsers/src/ParameterFileReader.h
affxparser/src/fusion_sdk/calvin_files/parsers/src/SAXArrayHandlers.cpp
affxparser/src/fusion_sdk/calvin_files/parsers/src/SAXArrayHandlers.h
affxparser/src/fusion_sdk/calvin_files/parsers/src/SAXParameterFileHandlers.cpp
affxparser/src/fusion_sdk/calvin_files/parsers/src/SAXParameterFileHandlers.h
affxparser/src/fusion_sdk/calvin_files/parsers/src/SAXTemplateHandlers.cpp
affxparser/src/fusion_sdk/calvin_files/parsers/src/SAXTemplateHandlers.h
affxparser/src/fusion_sdk/calvin_files/parsers/src/TemplateFileReader.cpp
affxparser/src/fusion_sdk/calvin_files/parsers/src/TemplateFileReader.h
affxparser/src/fusion_sdk/calvin_files/parsers/src/TextFileReader.cpp
affxparser/src/fusion_sdk/calvin_files/parsers/src/TextFileReader.h
affxparser/src/fusion_sdk/calvin_files/portability
affxparser/src/fusion_sdk/calvin_files/portability/src
affxparser/src/fusion_sdk/calvin_files/portability/src/AffymetrixBaseTypes.h
affxparser/src/fusion_sdk/calvin_files/template
affxparser/src/fusion_sdk/calvin_files/template/src
affxparser/src/fusion_sdk/calvin_files/template/src/TemplateData.cpp
affxparser/src/fusion_sdk/calvin_files/template/src/TemplateData.h
affxparser/src/fusion_sdk/calvin_files/template/src/TemplateId.h
affxparser/src/fusion_sdk/calvin_files/utils
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affxparser/src/fusion_sdk/calvin_files/utils/src/AffyStlCollectionTypes.h
affxparser/src/fusion_sdk/calvin_files/utils/src/AffymetrixGuid.cpp
affxparser/src/fusion_sdk/calvin_files/utils/src/AffymetrixGuid.h
affxparser/src/fusion_sdk/calvin_files/utils/src/Calvin.cpp
affxparser/src/fusion_sdk/calvin_files/utils/src/Calvin.h
affxparser/src/fusion_sdk/calvin_files/utils/src/Coords.h
affxparser/src/fusion_sdk/calvin_files/utils/src/DateTime.cpp
affxparser/src/fusion_sdk/calvin_files/utils/src/DateTime.h
affxparser/src/fusion_sdk/calvin_files/utils/src/FileUtils.cpp
affxparser/src/fusion_sdk/calvin_files/utils/src/FileUtils.h
affxparser/src/fusion_sdk/calvin_files/utils/src/GenoCallCoder.cpp
affxparser/src/fusion_sdk/calvin_files/utils/src/GenoCallCoder.h
affxparser/src/fusion_sdk/calvin_files/utils/src/StringUtils.cpp
affxparser/src/fusion_sdk/calvin_files/utils/src/StringUtils.h
affxparser/src/fusion_sdk/calvin_files/utils/src/Subgrids.h
affxparser/src/fusion_sdk/calvin_files/utils/src/checksum.cpp
affxparser/src/fusion_sdk/calvin_files/utils/src/checksum.h
affxparser/src/fusion_sdk/calvin_files/writers
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affxparser/src/fusion_sdk/calvin_files/writers/src/ArrayFileWriter.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/ArrayFileWriter.h
affxparser/src/fusion_sdk/calvin_files/writers/src/AuditFileWriter.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/AuditFileWriter.h
affxparser/src/fusion_sdk/calvin_files/writers/src/CDFCntrlFileWriter.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/CDFCntrlFileWriter.h
affxparser/src/fusion_sdk/calvin_files/writers/src/CDFCntrlProbeSetWriter.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/CDFCntrlProbeSetWriter.h
affxparser/src/fusion_sdk/calvin_files/writers/src/CDFFileWriter.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/CDFFileWriter.h
affxparser/src/fusion_sdk/calvin_files/writers/src/CDFProbeSetWriter.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/CDFProbeSetWriter.h
affxparser/src/fusion_sdk/calvin_files/writers/src/CalvinCHPFileBufferWriter.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/CalvinCHPFileBufferWriter.h
affxparser/src/fusion_sdk/calvin_files/writers/src/CalvinCHPFileUpdater.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/CalvinCHPFileUpdater.h
affxparser/src/fusion_sdk/calvin_files/writers/src/CalvinCHPFileWriter.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/CalvinCHPFileWriter.h
affxparser/src/fusion_sdk/calvin_files/writers/src/CalvinCHPMultiDataFileBufferWriter.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/CalvinCHPMultiDataFileBufferWriter.h
affxparser/src/fusion_sdk/calvin_files/writers/src/CalvinCHPMultiDataFileUpdater.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/CalvinCHPMultiDataFileUpdater.h
affxparser/src/fusion_sdk/calvin_files/writers/src/CalvinCHPMultiDataFileWriter.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/CalvinCHPMultiDataFileWriter.h
affxparser/src/fusion_sdk/calvin_files/writers/src/CalvinCHPQuantificationDetectionFileBufferWriter.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/CalvinCHPQuantificationDetectionFileBufferWriter.h
affxparser/src/fusion_sdk/calvin_files/writers/src/CalvinCHPQuantificationDetectionFileUpdater.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/CalvinCHPQuantificationDetectionFileUpdater.h
affxparser/src/fusion_sdk/calvin_files/writers/src/CalvinCHPQuantificationDetectionFileWriter.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/CalvinCHPQuantificationDetectionFileWriter.h
affxparser/src/fusion_sdk/calvin_files/writers/src/CalvinCHPQuantificationFileBufferWriter.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/CalvinCHPQuantificationFileBufferWriter.h
affxparser/src/fusion_sdk/calvin_files/writers/src/CalvinCHPQuantificationFileUpdater.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/CalvinCHPQuantificationFileUpdater.h
affxparser/src/fusion_sdk/calvin_files/writers/src/CalvinCHPQuantificationFileWriter.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/CalvinCHPQuantificationFileWriter.h
affxparser/src/fusion_sdk/calvin_files/writers/src/CalvinCHPTilingFileWriter.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/CalvinCHPTilingFileWriter.h
affxparser/src/fusion_sdk/calvin_files/writers/src/CalvinCelFileWriter.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/CalvinCelFileWriter.h
affxparser/src/fusion_sdk/calvin_files/writers/src/CombinedDatConstants.h
affxparser/src/fusion_sdk/calvin_files/writers/src/CopyNumberResultWriter.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/CopyNumberResultWriter.h
affxparser/src/fusion_sdk/calvin_files/writers/src/DATFileUpdater.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/DATFileUpdater.h
affxparser/src/fusion_sdk/calvin_files/writers/src/DATFileWriter.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/DATFileWriter.h
affxparser/src/fusion_sdk/calvin_files/writers/src/DataGroupHeaderUpdater.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/DataGroupHeaderUpdater.h
affxparser/src/fusion_sdk/calvin_files/writers/src/DataGroupHeaderWriter.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/DataGroupHeaderWriter.h
affxparser/src/fusion_sdk/calvin_files/writers/src/DataGroupWriter.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/DataGroupWriter.h
affxparser/src/fusion_sdk/calvin_files/writers/src/DataSetHeaderAppend.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/DataSetHeaderAppend.h
affxparser/src/fusion_sdk/calvin_files/writers/src/DataSetHeaderUpdater.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/DataSetHeaderUpdater.h
affxparser/src/fusion_sdk/calvin_files/writers/src/DataSetHeaderWriter.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/DataSetHeaderWriter.h
affxparser/src/fusion_sdk/calvin_files/writers/src/DataSetUpdater.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/DataSetUpdater.h
affxparser/src/fusion_sdk/calvin_files/writers/src/DataSetWriter.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/DataSetWriter.h
affxparser/src/fusion_sdk/calvin_files/writers/src/FileHeaderUpdater.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/FileHeaderUpdater.h
affxparser/src/fusion_sdk/calvin_files/writers/src/FileHeaderWriter.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/FileHeaderWriter.h
affxparser/src/fusion_sdk/calvin_files/writers/src/FileOutput.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/FileOutput.h
affxparser/src/fusion_sdk/calvin_files/writers/src/FileWriteException.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/FileWriteException.h
affxparser/src/fusion_sdk/calvin_files/writers/src/GenericDataHeaderUpdater.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/GenericDataHeaderUpdater.h
affxparser/src/fusion_sdk/calvin_files/writers/src/GenericDataHeaderWriter.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/GenericDataHeaderWriter.h
affxparser/src/fusion_sdk/calvin_files/writers/src/GenericFileUpdater.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/GenericFileUpdater.h
affxparser/src/fusion_sdk/calvin_files/writers/src/GenericFileWriter.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/GenericFileWriter.h
affxparser/src/fusion_sdk/calvin_files/writers/src/GridControlFileWriter.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/GridControlFileWriter.h
affxparser/src/fusion_sdk/calvin_files/writers/src/MMDATFileWriter.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/MMDATFileWriter.h
affxparser/src/fusion_sdk/calvin_files/writers/src/MMDataSetDataWriter.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/MMDataSetDataWriter.h
affxparser/src/fusion_sdk/calvin_files/writers/src/MultiChannelCelFileCollater.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/MultiChannelCelFileCollater.h
affxparser/src/fusion_sdk/calvin_files/writers/src/TemplateFileWriter.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/TemplateFileWriter.h
affxparser/src/fusion_sdk/calvin_files/writers/src/TextFileWriter.cpp
affxparser/src/fusion_sdk/calvin_files/writers/src/TextFileWriter.h
affxparser/src/fusion_sdk/file
affxparser/src/fusion_sdk/file/1LQFileData.cpp
affxparser/src/fusion_sdk/file/1LQFileData.h
affxparser/src/fusion_sdk/file/BARFileData.cpp
affxparser/src/fusion_sdk/file/BARFileData.h
affxparser/src/fusion_sdk/file/BARFileWriter.cpp
affxparser/src/fusion_sdk/file/BARFileWriter.h
affxparser/src/fusion_sdk/file/BEDFileData.cpp
affxparser/src/fusion_sdk/file/BEDFileData.h
affxparser/src/fusion_sdk/file/BEDFileWriter.cpp
affxparser/src/fusion_sdk/file/BEDFileWriter.h
affxparser/src/fusion_sdk/file/BPMAPFileData.cpp
affxparser/src/fusion_sdk/file/BPMAPFileData.h
affxparser/src/fusion_sdk/file/BPMAPFileWriter.cpp
affxparser/src/fusion_sdk/file/BPMAPFileWriter.h
affxparser/src/fusion_sdk/file/CDFFileData.cpp
affxparser/src/fusion_sdk/file/CDFFileData.h
affxparser/src/fusion_sdk/file/CELFileData.cpp
affxparser/src/fusion_sdk/file/CELFileData.h
affxparser/src/fusion_sdk/file/CELFileWriter.cpp
affxparser/src/fusion_sdk/file/CELFileWriter.h
affxparser/src/fusion_sdk/file/CHPFileBufferWriter.cpp
affxparser/src/fusion_sdk/file/CHPFileBufferWriter.h
affxparser/src/fusion_sdk/file/CHPFileData.cpp
affxparser/src/fusion_sdk/file/CHPFileData.h
affxparser/src/fusion_sdk/file/CHPFileUpdater.cpp
affxparser/src/fusion_sdk/file/CHPFileUpdater.h
affxparser/src/fusion_sdk/file/CHPFileWriter.cpp
affxparser/src/fusion_sdk/file/CHPFileWriter.h
affxparser/src/fusion_sdk/file/CMSFileData.cpp
affxparser/src/fusion_sdk/file/CMSFileData.h
affxparser/src/fusion_sdk/file/DATFileData.cpp
affxparser/src/fusion_sdk/file/DATFileData.h
affxparser/src/fusion_sdk/file/DttArrayFileReader.cpp
affxparser/src/fusion_sdk/file/DttArrayFileReader.h
affxparser/src/fusion_sdk/file/EXPFileData.cpp
affxparser/src/fusion_sdk/file/EXPFileData.h
affxparser/src/fusion_sdk/file/FileIO.cpp
affxparser/src/fusion_sdk/file/FileIO.h
affxparser/src/fusion_sdk/file/FileWriter.cpp
affxparser/src/fusion_sdk/file/FileWriter.h
affxparser/src/fusion_sdk/file/GQCFileData.cpp
affxparser/src/fusion_sdk/file/GQCFileData.h
affxparser/src/fusion_sdk/file/GRCFileData.cpp
affxparser/src/fusion_sdk/file/GRCFileData.h
affxparser/src/fusion_sdk/file/GRCFileWriter.cpp
affxparser/src/fusion_sdk/file/GRCFileWriter.h
affxparser/src/fusion_sdk/file/GRDFileData.cpp
affxparser/src/fusion_sdk/file/GRDFileData.h
affxparser/src/fusion_sdk/file/GRDFileWriter.cpp
affxparser/src/fusion_sdk/file/GRDFileWriter.h
affxparser/src/fusion_sdk/file/GridControlData.h
affxparser/src/fusion_sdk/file/GridCoordinates.h
affxparser/src/fusion_sdk/file/IniFile.cpp
affxparser/src/fusion_sdk/file/IniFile.h
affxparser/src/fusion_sdk/file/IntervalEntry.h
affxparser/src/fusion_sdk/file/MDLFileData.cpp
affxparser/src/fusion_sdk/file/MDLFileData.h
affxparser/src/fusion_sdk/file/MSKFileData.cpp
affxparser/src/fusion_sdk/file/MSKFileData.h
affxparser/src/fusion_sdk/file/MSKFileWriter.cpp
affxparser/src/fusion_sdk/file/MSKFileWriter.h
affxparser/src/fusion_sdk/file/PSIFileData.cpp
affxparser/src/fusion_sdk/file/PSIFileData.h
affxparser/src/fusion_sdk/file/SAXDttArrayHandlers.cpp
affxparser/src/fusion_sdk/file/SAXDttArrayHandlers.h
affxparser/src/fusion_sdk/file/SMDFileData.cpp
affxparser/src/fusion_sdk/file/SMDFileData.h
affxparser/src/fusion_sdk/file/SimpleBinaryFile.cpp
affxparser/src/fusion_sdk/file/SimpleBinaryFile.h
affxparser/src/fusion_sdk/file/TagValuePair.h
affxparser/src/fusion_sdk/file/TsvFile
affxparser/src/fusion_sdk/file/TsvFile/BgpFile.cpp
affxparser/src/fusion_sdk/file/TsvFile/BgpFile.h
affxparser/src/fusion_sdk/file/TsvFile/ClfFile.cpp
affxparser/src/fusion_sdk/file/TsvFile/ClfFile.h
affxparser/src/fusion_sdk/file/TsvFile/DumpPgf.cpp
affxparser/src/fusion_sdk/file/TsvFile/DumpPgf.h
affxparser/src/fusion_sdk/file/TsvFile/PgfFile.cpp
affxparser/src/fusion_sdk/file/TsvFile/PgfFile.h
affxparser/src/fusion_sdk/file/TsvFile/SequentialClfFile.cpp
affxparser/src/fusion_sdk/file/TsvFile/SequentialClfFile.h
affxparser/src/fusion_sdk/file/TsvFile/SnpTable.cpp
affxparser/src/fusion_sdk/file/TsvFile/SnpTable.h
affxparser/src/fusion_sdk/file/TsvFile/SpfFile.cpp
affxparser/src/fusion_sdk/file/TsvFile/SpfFile.h
affxparser/src/fusion_sdk/file/TsvFile/TsvFile.cpp
affxparser/src/fusion_sdk/file/TsvFile/TsvFile.h
affxparser/src/fusion_sdk/file/TsvFile/TsvFileDiff.cpp
affxparser/src/fusion_sdk/file/TsvFile/TsvFileDiff.h
affxparser/src/fusion_sdk/file/TsvFile/TsvJoin.cpp
affxparser/src/fusion_sdk/file/TsvFile/TsvJoin.h
affxparser/src/fusion_sdk/file/TsvFile/apt-dump-pgf.cpp
affxparser/src/fusion_sdk/file/TsvFile/apt-tsv-join.cpp
affxparser/src/fusion_sdk/file/TsvFile/tsv-example.cpp
affxparser/src/fusion_sdk/file/TsvFile/tsv-test.cpp
affxparser/src/fusion_sdk/file/TsvFile/tsv-util.cpp
affxparser/src/fusion_sdk/file/test-fileio.cpp
affxparser/src/fusion_sdk/portability
affxparser/src/fusion_sdk/portability/affy-base-types.h
affxparser/src/fusion_sdk/portability/affy-system-api.h
affxparser/src/fusion_sdk/portability/apt-no-warnings.h
affxparser/src/fusion_sdk/portability/apt-win-dll.h
affxparser/src/fusion_sdk/util
affxparser/src/fusion_sdk/util/AffxArray.h
affxparser/src/fusion_sdk/util/AffxBinaryFile.cpp
affxparser/src/fusion_sdk/util/AffxBinaryFile.h
affxparser/src/fusion_sdk/util/AffxByteArray.cpp
affxparser/src/fusion_sdk/util/AffxByteArray.h
affxparser/src/fusion_sdk/util/AffxConv.cpp
affxparser/src/fusion_sdk/util/AffxConv.h
affxparser/src/fusion_sdk/util/AffxMultiDimensionalArray.h
affxparser/src/fusion_sdk/util/AffxSTL.h
affxparser/src/fusion_sdk/util/AffxSplitArray.h
affxparser/src/fusion_sdk/util/AffxStatistics.cpp
affxparser/src/fusion_sdk/util/AffxStatistics.h
affxparser/src/fusion_sdk/util/AffxString.cpp
affxparser/src/fusion_sdk/util/AffxString.h
affxparser/src/fusion_sdk/util/AffxTime.cpp
affxparser/src/fusion_sdk/util/AffxTime.h
affxparser/src/fusion_sdk/util/AptErrno.h
affxparser/src/fusion_sdk/util/AptVersionInfo.h
affxparser/src/fusion_sdk/util/BaseEngine.cpp
affxparser/src/fusion_sdk/util/BaseEngine.h
affxparser/src/fusion_sdk/util/CalvinChpCheck.h
affxparser/src/fusion_sdk/util/CalvinToText.cpp
affxparser/src/fusion_sdk/util/CalvinToText.h
affxparser/src/fusion_sdk/util/CelCheck.h
affxparser/src/fusion_sdk/util/ChpCheck.h
affxparser/src/fusion_sdk/util/Convert.cpp
affxparser/src/fusion_sdk/util/Convert.h
affxparser/src/fusion_sdk/util/DotProgress.cpp
affxparser/src/fusion_sdk/util/DotProgress.h
affxparser/src/fusion_sdk/util/Engines.h
affxparser/src/fusion_sdk/util/Err.cpp
affxparser/src/fusion_sdk/util/Err.h
affxparser/src/fusion_sdk/util/ErrHandler.h
affxparser/src/fusion_sdk/util/Except.h
affxparser/src/fusion_sdk/util/FrugalVector.h
affxparser/src/fusion_sdk/util/Fs.cpp
affxparser/src/fusion_sdk/util/Fs.h
affxparser/src/fusion_sdk/util/FsPath.cpp
affxparser/src/fusion_sdk/util/FsPath.h
affxparser/src/fusion_sdk/util/Guid.cpp
affxparser/src/fusion_sdk/util/Guid.h
affxparser/src/fusion_sdk/util/LineFile.cpp
affxparser/src/fusion_sdk/util/LineFile.h
affxparser/src/fusion_sdk/util/LogStream.cpp
affxparser/src/fusion_sdk/util/LogStream.h
affxparser/src/fusion_sdk/util/MatrixCheck.h
affxparser/src/fusion_sdk/util/MessageStream.h
affxparser/src/fusion_sdk/util/MixedFileCheck.h
affxparser/src/fusion_sdk/util/MsgHandler.h
affxparser/src/fusion_sdk/util/MsgSocketHandler.cpp
affxparser/src/fusion_sdk/util/MsgSocketHandler.h
affxparser/src/fusion_sdk/util/MsgStream.cpp
affxparser/src/fusion_sdk/util/MsgStream.h
affxparser/src/fusion_sdk/util/Options.cpp
affxparser/src/fusion_sdk/util/Options.h
affxparser/src/fusion_sdk/util/OutputMessageStream.cpp
affxparser/src/fusion_sdk/util/OutputMessageStream.h
affxparser/src/fusion_sdk/util/PgOptions.cpp
affxparser/src/fusion_sdk/util/PgOptions.h
affxparser/src/fusion_sdk/util/Progress.h
affxparser/src/fusion_sdk/util/ProgressDot.h
affxparser/src/fusion_sdk/util/ProgressHandler.h
affxparser/src/fusion_sdk/util/RowFile.cpp
affxparser/src/fusion_sdk/util/RowFile.h
affxparser/src/fusion_sdk/util/SQLite.cpp
affxparser/src/fusion_sdk/util/SQLite.h
affxparser/src/fusion_sdk/util/SocketBase.cpp
affxparser/src/fusion_sdk/util/SocketBase.h
affxparser/src/fusion_sdk/util/SocketClient.cpp
affxparser/src/fusion_sdk/util/SocketClient.h
affxparser/src/fusion_sdk/util/SocketEngine.cpp
affxparser/src/fusion_sdk/util/SocketEngine.h
affxparser/src/fusion_sdk/util/SocketHandler.cpp
affxparser/src/fusion_sdk/util/SocketHandler.h
affxparser/src/fusion_sdk/util/SocketServer.cpp
affxparser/src/fusion_sdk/util/SocketServer.h
affxparser/src/fusion_sdk/util/SocketTextHandler.cpp
affxparser/src/fusion_sdk/util/SocketTextHandler.h
affxparser/src/fusion_sdk/util/SocketUtil.cpp
affxparser/src/fusion_sdk/util/SocketUtil.h
affxparser/src/fusion_sdk/util/TableFile.cpp
affxparser/src/fusion_sdk/util/TableFile.h
affxparser/src/fusion_sdk/util/TextFileCheck.h
affxparser/src/fusion_sdk/util/TmpFileFactory.cpp
affxparser/src/fusion_sdk/util/TmpFileFactory.h
affxparser/src/fusion_sdk/util/Util.cpp
affxparser/src/fusion_sdk/util/Util.h
affxparser/src/fusion_sdk/util/Verbose.cpp
affxparser/src/fusion_sdk/util/Verbose.h
affxparser/src/fusion_sdk/util/VerboseErrHandler.h
affxparser/src/fusion_sdk/util/apt-check-calvinchp.cpp
affxparser/src/fusion_sdk/util/apt-check-cel.cpp
affxparser/src/fusion_sdk/util/apt-check-chp.cpp
affxparser/src/fusion_sdk/util/apt-check-matrix.cpp
affxparser/src/fusion_sdk/util/apt-check-mixedfile.cpp
affxparser/src/fusion_sdk/util/apt-check-textfile.cpp
affxparser/src/fusion_sdk/util/apt-engine-wrapper.cpp
affxparser/src/fusion_sdk/util/apt-engine-wrapper.vcproj
affxparser/src/fusion_sdk/util/chksum.cpp
affxparser/src/fusion_sdk/util/chksum.h
affxparser/src/fusion_sdk/util/dump-guid.cpp
affxparser/src/fusion_sdk/util/md5.cpp
affxparser/src/fusion_sdk/util/md5.h
affxparser/src/fusion_sdk/util/md5sum.cpp
affxparser/src/fusion_sdk/util/md5sum.h
affxparser/src/fusion_sdk/util/test-md5sum.cpp
affxparser/src/fusion_sdk/util/test-tmpfilefactory.cpp
affxparser/src/fusion_sdk/util/util-meminfo.cpp
affxparser/tests
affxparser/tests/convertCel.R
affxparser/tests/readCdfDataFrame.R
affxparser/tests/readCdfQc.R
affxparser/tests/readCdfUnitsWriteMap.R
affxparser/tests/readCdfUnits_etal.R
affxparser/tests/readCel.R
affxparser/tests/readCelIntensities.R
affxparser/tests/readCelRectangle.R
affxparser/tests/readCelUnits.R
affxparser/tests/readPgf.R
affxparser/tests/testWriteAndReadEmptyCdf.R
affxparser/tests/testWriteAndReadEmptyCel.R
affxparser/tests/torture
affxparser/tests/torture/tortureReadCdfUnits.R
affxparser/tests/torture/tortureReadCel.R
affxparser/tests/torture/tortureReadCelHeader.R
affxparser/tests/torture/tortureReadCelUnits.R
affxparser/tests/validate
affxparser/tests/validate/validateCelFileFormats.R