Package: xps
Version: 1.0.2
Title: Methods for Processing and Analysis of Affymetrix
        Oligonucleotide Arrays including Exon Arrays and Gene Arrays
Author: Christian Stratowa, Vienna, Austria
Maintainer: Christian Stratowa <cstrato@aon.at>
Depends: R (>= 2.5.0), methods
Description: 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) and gene array systems (Gene 1.0 ST)
        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, DABG-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.
License: GPL version 2 or newer
Collate: utils.R TreeSetClasses.R methods.ProjectInfo.R
        methods.Filter.R methods.PreFilter.R methods.UniFilter.R
        methods.TreeSet.R methods.SchemeTreeSet.R methods.ProcesSet.R
        methods.DataTreeSet.R methods.ExprTreeSet.R
        methods.CallTreeSet.R methods.FilterTreeSet.R
        methods.AnalysisTreeSet.R Constructors.R import.expr.scheme.R
        import.exon.scheme.R import.genome.scheme.R root.scheme.R
        import.data.R root.data.R export.R rma.R mas4.R mas5.R
        mas5.call.R dabg.call.R bgcorrect.R normalize.R summarize.R
        express.R filter.R image.dev.R boxplot.dev.R mvaplot.dev.R
        root.image.R root.density.R root.draw.R root.draw.leaves.R
        zzz.R
biocViews: Microarray, OneChannel, Preprocessing
LazyLoad: yes
SystemRequirements: ROOT <http://root.cern.ch> - See README file for
        installation instructions.
Packaged: Wed Jul 30 04:22:28 2008; biocbuild
Built: R 2.7.1; i386-pc-mingw32; 2008-07-30 08:38:41; windows
