affxparser

Affymetrix File Parsing SDK

Bioconductor version: Development (3.0)

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], Martin Morgan [ctb]

Maintainer: Kasper Daniel Hansen <khansen at jhsph.edu>

To install this package, start R and enter:

    source("http://bioconductor.org/biocLite.R")
    biocLite("affxparser")

To cite this package in a publication, start R and enter:

    citation("affxparser")

Documentation

PDF   Reference Manual
Text   NEWS

Details

biocViews DataImport, Infrastructure, Software
Version 1.37.0
In Bioconductor since BioC 1.7 (R-2.2)
License LGPL (>= 2)
Depends R (>= 2.6.0)
Imports
Suggests R.utils (>= 1.29.8), AffymetrixDataTestFiles
System Requirements
URL
Depends On Me ITALICS, pdInfoBuilder, rMAT, Starr
Imports Me affyILM, AffyTiling, cn.farms, GeneRegionScan, ITALICS, oligo, rMAT
Suggests Me

Package Downloads

Package Source affxparser_1.37.0.tar.gz
Windows Binary affxparser_1.37.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) affxparser_1.37.0.tgz
Mac OS X 10.9 (Mavericks)
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