xps-package: xps Package Overview
In xps: Processing and Analysis of Affymetrix Oligonucleotide Arrays including Exon Arrays, Whole Genome Arrays and Plate Arrays
Description
xps Package Overview
Details
Important data classes: SchemeTreeSet,
DataTreeSet,
ExprTreeSet,
CallTreeSet,
FilterTreeSet,
AnalysisTreeSet.
Full help on methods and associated functions is available from
within class help pages.
Additional data classes: ProjectInfo,
PreFilter, UniFilter.
The package handles pre-processing, normalization, filtering and analysis
of Affymetrix GeneChip expression arrays, including exon array systems
(Exon 1.0 ST: core, extended, full probesets), gene array systems (Gene 1.0 ST)
and plate array systems on computers with 1 GB RAM only. It imports Affymetrix
.CDF, .CLF, .PGF and .CEL as well as Affymetrix 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, see the README file. However, no knowledge of ROOT
is required. ROOT is licensed under LGPL and can be downloaded from http://root.cern.ch.
Author(s)
Christian Stratowa cstrato@aon.at
xps documentation built on Nov. 8, 2020, 6 p.m.
R Package Documentation
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Note that we can't provide technical support on individual packages. You should contact the package authors for that.
Description
xps Package Overview
Details
Important data classes: SchemeTreeSet,
DataTreeSet,
ExprTreeSet,
CallTreeSet,
FilterTreeSet,
AnalysisTreeSet.
Full help on methods and associated functions is available from
within class help pages.
Additional data classes: ProjectInfo,
PreFilter, UniFilter.
The package handles pre-processing, normalization, filtering and analysis of Affymetrix GeneChip expression arrays, including exon array systems (Exon 1.0 ST: core, extended, full probesets), gene array systems (Gene 1.0 ST) and plate array systems on computers with 1 GB RAM only. It imports Affymetrix .CDF, .CLF, .PGF and .CEL as well as Affymetrix 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, see the README file. However, no knowledge of ROOT is required. ROOT is licensed under LGPL and can be downloaded from http://root.cern.ch.
Author(s)
Christian Stratowa cstrato@aon.at
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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