affxparser

DOI: 10.18129/B9.bioc.affxparser    

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see affxparser.

Affymetrix File Parsing SDK

Bioconductor version: 3.9

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]

Maintainer: Kasper Daniel Hansen <kasperdanielhansen at gmail.com>

Installation

To install this package, start R (version "3.6") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("affxparser")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

PDF		Reference Manual
Text		NEWS

Details

biocViews	DataImport, Infrastructure, Microarray, OneChannel, ProprietaryPlatforms, Software
Version	1.56.0
In Bioconductor since	BioC 1.7 (R-2.2) (14 years)
License	LGPL (>= 2)
Depends	R (>= 2.14.0)
Imports
LinkingTo
Suggests	R.oo (>= 1.22.0), R.utils (>= 2.7.0), AffymetrixDataTestFiles
SystemRequirements
Enhances
URL	https://github.com/HenrikBengtsson/affxparser
BugReports	https://github.com/HenrikBengtsson/affxparser/issues
Depends On Me	ITALICS, pdInfoBuilder, rMAT, Starr
Imports Me	affyILM, cn.farms, crossmeta, EventPointer, GeneRegionScan, ITALICS, oligo, rMAT
Suggests Me	TIN
Links To Me
Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	affxparser_1.56.0.tar.gz
Windows Binary	affxparser_1.56.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan)	affxparser_1.56.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/affxparser
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/affxparser
Package Short Url	https://bioconductor.org/packages/affxparser/
Package Downloads Report	Download Stats