Package: ArrayTools
Type: Package
Title: geneChip Analysis Package
Version: 1.8.0
Date: 2009-07-22
Author: Xiwei Wu, Arthur Li
Depends: R (>= 2.7.0), affy (>= 1.23.4), Biobase (>= 2.5.5), methods
Imports: affy, Biobase, graphics, grDevices, limma, methods, stats,
        utils, xtable
Suggests: simpleaffy, R2HTML, affydata, affyPLM, genefilter, annaffy,
        gcrma, hugene10sttranscriptcluster.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: 2010-04-23 00:28:28 UTC; biocbuild
Built: R 2.11.0; ; 2010-04-23 04:51:02 UTC; unix
