Package: Repitools
Version: 1.4.2
Date: 2013/3/12
Title: Epigenomic tools
Author: Mark Robinson <mark.robinson@imls.uzh.ch>, Dario Strbenac <d.strbenac@garvan.org.au>, Aaron Statham <a.statham@garvan.org.au>
Maintainer: Mark Robinson <mark.robinson@imls.uzh.ch>
LazyLoad: Yes
Depends: R (>= 2.13.0), methods, BiocGenerics (>= 0.1.0), GenomicRanges
        (>= 1.7.8)
Imports: BiocGenerics, IRanges (>= 1.13.5), GenomicRanges, BSgenome,
        gplots, grid, MASS, gsmoothr, edgeR (>= 2.99.2), DNAcopy,
        Ringo, aroma.affymetrix
Suggests: GenomicRanges, IRanges, BSgenome, gplots, grid, MASS,
        gsmoothr, edgeR, DNAcopy, Ringo, aroma.affymetrix, ShortRead,
        BSgenome.Hsapiens.UCSC.hg18
Description: Tools for the analysis of enrichment-based epigenomic data.  Features include summarization and visualization of epigenomic data across promoters according to gene expression context, finding regions of differential methylation/binding, etc. 
Collate: classes.R multiHeatmap.R BAM2GRanges.R FastQC-class.R
        plotClusters.R annoDF2GR.R GCbiasPlots.R featureScores.R
        profilePlots.R findClusters.R mergeReplicates.R
        processNimblegenArrays.R regionStats.R cpgDensityPlot.R
        featureBlocks.R getProbePositionsDf.R genomeBlocks.R
        mappabilityCalc.R ChromaBlocks.R writeWig.R abcdDNA.R
        makeWindowLookup.R sequenceCalc.R genQC.R annoGR2DF.R
        gcContentCalc.R GCadjustCopy.R enrichmentPlot.R cpgBoxplots.R
        GDL2GRL.R utils.R absoluteCN.R annotationLookup.R
        cpgDensityCalc.R blocksStats.R binPlots.R chromosomeCNplots.R
        checkProbes.R relativeCN.R enrichmentCalc.R clusterPlots.R
        summarizeScores.R
License: LGPL (>= 2)
biocViews: DNAMethylation, GeneExpression, Methylseq
Packaged: 2013-03-13 04:36:34 UTC; biocbuild
Built: R 2.15.3; ; 2013-03-13 09:02:16 UTC; unix
