Package: RnBeads
Title: RnBeads
Description: RnBeads facilitates comprehensive analysis of various types of DNA
    methylation data at the genome scale.
Authors@R: c(
    person("Yassen", "Assenov", email = "yassen@mpi-inf.mpg.de",
    role = c("aut")),
    person("Pavlo", "Lutsik", email = "p.lutsik@mx.uni-saarland.de",
    role = c("aut")),
    person("Fabian", "Mueller", email = "rnbeads@mpi-inf.mpg.de",
    role = c("aut", "cre")))
Date: 2015-03-15
Version: 1.0.0
Suggests: BSgenome.Hsapiens.UCSC.hg19, BSgenome.Mmusculus.UCSC.mm10,
        BSgenome.Mmusculus.UCSC.mm9, BSgenome.Rnorvegicus.UCSC.rn5,
        Category, GEOquery, GOstats, Gviz,
        IlluminaHumanMethylation450kmanifest, RPMM, RefFreeEWAS,
        RnBeads.hg19, RnBeads.mm10, RnBeads.mm9, RnBeads.rn5, XML,
        annotate, biomaRt, foreach, doParallel, ggbio, isva, mclust,
        mgcv, minfi, nlme, org.Hs.eg.db, org.Mm.eg.db, org.Rn.eg.db,
        quadprog, rtracklayer, sva, wateRmelon, wordcloud, argparse
Depends: R (>= 3.0.0), BiocGenerics, GenomicRanges, MASS, RColorBrewer,
        cluster, ff, fields, ggplot2 (>= 0.9.2), gplots, gridExtra,
        limma, matrixStats, methods, illuminaio, methylumi, plyr
Imports: IRanges
License: GPL-3
biocViews: DNAMethylation, MethylationArray, MethylSeq, Epigenetics,
        QualityControl, Preprocessing, BatchEffect,
        DifferentialMethylation, Sequencing, CpGIsland, TwoChannel,
        DataImport
Collate: 'CNV.R' 'Report-class.R' 'Report-methods.R'
        'ReportPlot-class.R' 'ReportPlot-methods.R'
        'RnBDiffMeth-class.R' 'RnBSet-class.R' 'RnBeadSet-class.R'
        'RnBeadRawSet-class.R' 'RnBeads-package.R' 'RnBiseqSet-class.R'
        'annotations.R' 'batch.R' 'batch.quality.R' 'bmiq.R'
        'cellTypeAdjustment.R' 'clusterArchitecture.R'
        'clusterArchitectureSGE.R' 'clustering.R' 'computeCluster.R'
        'controlPlots.R' 'controlPlotsBiSeq.R' 'dataExport.R'
        'dataImport.R' 'differentialMethylation.R' 'enrichment.R'
        'filtering.R' 'filteringSummary.R' 'gender.R' 'greedycut.R'
        'loading.R' 'logger.R' 'main.R' 'normalization.R' 'options.R'
        'parallelProcessing.R' 'plottingUtils.R' 'profiles.R'
        'qualityControl.R' 'readGEO.R' 'regionDescription.R'
        'regionProfiles.R' 'subSegments.R' 'sva.R' 'utilities.R'
        'wbcInference.R'
NeedsCompilation: no
Packaged: 2015-04-17 06:01:20 UTC; biocbuild
Author: Yassen Assenov [aut],
  Pavlo Lutsik [aut],
  Fabian Mueller [aut, cre]
Maintainer: Fabian Mueller <rnbeads@mpi-inf.mpg.de>
Built: R 3.2.0; ; 2015-04-17 12:42:06 UTC; windows
