Package: ArrayTools
Type: Package
Title: geneChip Analysis Package
Version: 1.2.1
Date: 2008-08-19
Author: Xiwei Wu, Arthur Li
Depends: R (>= 2.7.0), affy, Biobase, graphics, grDevices, limma,
        methods, stats, utils, xtable
Suggests: simpleaffy, R2HTML, affydata, affyPLM, genefilter, annaffy,
        gcrma, hugene10st.db
Collate: Generic.R designMatrix-class.R contrastMatrix-class.R
        regressResult-class.R interactionResult-class.R
        preProcess3prime.R preProcessGeneST.R createExpressionSet.R
        regress.R selectSigGene.R postInteraction.R selectSigGeneInt.R
        createGSEAFiles.R createIndex.R createIngenuityFile.R
        geneFilter.R intensityPlot.R output.cls.R output.gct.R
        output.ing.R plotCluster.R qa3prime.R qaGeneST.R
Maintainer: Arthur Li <xueli@coh.org>
Description: This package is designed to provide solutions for quality
        assessment and to detect differentially expressed genes for the
        Affymetrix GeneChips, including both 3' -arrays and gene 1.0-ST
        arrays. The package generates comprehensive analysis reports in
        HTML format. Hyperlinks on the report page will lead to a
        series of QC plots, processed data, and differentially
        expressed gene lists. Differentially expressed genes are
        reported in tabular format with annotations hyperlinked to
        online biological databases.
biocViews: Microarray, OneChannel, QualityControl, Preprocessing,
        Statistics, DifferentialExpression, Annotation, ReportWriting,
        Visualization
License: LGPL(>= 2.0)
LazyLoad: yes
Packaged: Tue Jan 27 15:48:15 2009; biocbuild
Built: R 2.8.1; ; 2009-01-27 19:07:35; windows
