xps
Processing and Analysis of Affymetrix Oligonucleotide Arrays
including Exon Arrays, Whole Genome Arrays and Plate Arrays
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, 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 http://root.cern.ch.
| Author |
Christian Stratowa, Vienna, Austria |
| Maintainer |
Christian Stratowa |
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("xps")
Documentation
Details
| biocViews |
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| Depends |
R
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methods
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| Imports |
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| Suggests |
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| System Requirements |
root_v5.22.00 <http://root.cern.ch> - See README
file for installation instructions. |
| License |
GPL (>= 2.0) |
| URL |
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| Depends On Me |
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| Imports Me |
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| Suggests Me |
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| Development History |
Bioconductor Changelog
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Package Downloads