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This package is for version 2.9 of Bioconductor;
for the stable, up-to-date release version, see
xps.
Processing and Analysis of Affymetrix Oligonucleotide Arrays including Exon Arrays, Whole Genome Arrays and Plate Arrays
Bioconductor version: 2.9
The package handles pre-processing, normalization, filtering and analysis of Affymetrix GeneChip expression arrays, including exon arrays (Exon 1.0 ST: core, extended, full probesets), gene arrays (Gene 1.0 ST) and plate arrays on computers with 1 GB RAM only. It imports Affymetrix .CDF, .CLF, .PGF and .CEL as well as annotation files, and computes e.g. RMA, MAS5, FARMS, DFW, FIRMA, tRMA, MAS5-calls, DABG-calls, I/NI-calls. It is an R wrapper to XPS (eXpression Profiling System), which is based on ROOT, an object-oriented framework developed at CERN. Thus, the prior installation of ROOT is a prerequisite for the usage of this package, however, no knowledge of ROOT is required. ROOT is licensed under LGPL and can be downloaded from root.cern.ch.
Author: Christian Stratowa, Vienna, Austria
Maintainer: Christian Stratowa <cstrato at aon.at>
Citation (from within R,
enter citation("xps")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("xps")
Documentation
To view documentation for the version of this package installed
in your system, start R and enter:
browseVignettes("xps")
| APTvsXPS.pdf | ||
| xps.pdf | ||
| xpsClasses.pdf | ||
| xpsPreprocess.pdf | ||
| Reference Manual |
Details
Package Archives
Follow
Installation instructions to use this
package in your R session.
Read more here: Source link