# Affymetrix File Parsing SDK

## Documentation for package ‘affxparser’ version 1.74.0

- 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.