Affymetrix File Parsing SDK

---

Documentation for package ‘affxparser’ version 1.81.0

• DESCRIPTION file.
• Package NEWS.

Help Pages

affxparser-package	Package affxparser
1. Dictionary	1. Dictionary
2. Cell coordinates and cell indices	2. Cell coordinates and cell indices
affxparser	Package affxparser
applyCdfBlocks	Applies a function over the groups in a CDF structure
applyCdfGroupFields	Applies a function to a list of fields of each group in a CDF structure
applyCdfGroups	Applies a function over the groups in a CDF structure
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
createCel	Creates an empty CEL file
findCdf	Search for CDF files in multiple directories
readBpmap	Parses a Bpmap file
readBpmapHeader	Parses a Bpmap file
readBpmapSeqinfo	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 (CCG) file
readCdfCellIndices	Reads (one-based) cell indices of units (probesets) in an Affymetrix CDF file
readCdfGroupNames	Reads group names for a set of units (probesets) in an Affymetrix CDF file
readCdfHeader	Reads the header associated with an Affymetrix CDF file
readCdfUnitNames	Reads unit (probeset) names from an Affymetrix CDF file
readCdfUnits	Reads units (probesets) from an Affymetrix 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 files
readCelRectangle	Reads a spatial subset of probe-level data from Affymetrix CEL files
readCelUnits	Reads probe-level data ordered as units (probesets) from one or several Affymetrix CEL files
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.
tpmap2bpmap	Writes BPMAP and TPMAP files
updateCel	Updates a CEL file
updateCelUnits	Updates a CEL file unit by unit
writeTpmap	Writes BPMAP and TPMAP files