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: 2016-03-20
Version: 1.4.0
Suggests: Category, GEOquery, GOstats, Gviz,
        IlluminaHumanMethylation450kmanifest, RPMM, RefFreeEWAS,
        RnBeads.hg19, 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, glmnet, impute
Depends: R (>= 3.0.0), BiocGenerics, S4Vectors (>= 0.9.25),
        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' 'bigFf.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' 'agePrediction.R'
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-05-04 05:05:32 UTC; biocbuild
Author: Yassen Assenov [aut],
  Pavlo Lutsik [aut],
  Fabian Mueller [aut, cre]
Maintainer: Fabian Mueller <rnbeads@mpi-inf.mpg.de>
Built: R 3.3.0; ; 2016-05-04 15:02:28 UTC; unix
