Package: xps
Version: 1.6.4
Title: Processing and Analysis of Affymetrix Oligonucleotide Arrays
        including Exon Arrays, Whole Genome Arrays and Plate Arrays
Author: Christian Stratowa, Vienna, Austria
Maintainer: Christian Stratowa <cstrato@aon.at>
Depends: R (>= 2.6.0), methods
Description: 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.
License: GPL (>= 2.0)
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 root.merge.data.R root.expr.R
        root.call.R export.R rma.R mas4.R mas5.R mas5.call.R
        dabg.call.R dfw.R farms.R ini.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 root.profile.R zzz.R
biocViews: ExonArray, GeneExpression, Microarray, OneChannel,
        DataImport, Preprocessing
LazyLoad: yes
SystemRequirements: root_v5.24.00 <http://root.cern.ch> - See README
        file for installation instructions.
Packaged: 2010-02-16 10:36:04 UTC; biocbuild
Built: R 2.10.1; i386-pc-mingw32; 2010-02-16 15:02:30 UTC; windows
