Package: xps
Version: 1.2.10
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 (>= 2.5.0), 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.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: Microarray, OneChannel, Preprocessing
LazyLoad: yes
SystemRequirements: ROOT <http://root.cern.ch> - See README file for
        installation instructions.
Packaged: Tue Apr 14 16:18:11 2009; biocbuild
Built: R 2.8.1; universal-apple-darwin9.6.0; 2009-04-14 18:32:56; unix
