Package: htSeqTools
Version: 1.4.0
Date: 2012-03-19
Title: Quality Control, Visualization and Processing for
        High-Throughput Sequencing data
Author: Evarist Planet, Camille Stephan-Otto, Oscar Reina, Oscar Flores, David Rossell
Maintainer: Oscar Reina <oscar.reina@irbbarcelona.org>
Depends: R (>= 2.12.2), methods, BiocGenerics (>= 0.1.0), Biobase,
        IRanges, methods, MASS, BSgenome, GenomicRanges
Enhances: multicore
Description: We provide efficient, easy-to-use tools for High-Throughput Sequencing (ChIP-seq, RNAseq etc.). These include MDS plots (analogues to PCA), detecting inefficient immuno-precipitation or over-amplification artifacts, tools to identify and test for genomic regions with large accumulation of reads, and visualization of coverage profiles.
License: GPL (>=2)
LazyLoad: yes
Collate: ClassDefinitions.R GenericDefs.R alignPeaks.R extendRanges.R
        filterDuplReads.R mergeRegions.R stdPeakLocation.R
        rowLogRegLRT.R enrichedRegions.R enrichedPeaks.R listOverlap.R
        tabDuplReads.R cmdsFit-class.R cmds.R fdrEnrichedCounts.R
        islandCounts.R countRepeats.R ssdCoverage.R giniCoverage.R
        regionsCoverage.R gridCover-methods.R enrichedChrRegions.R
        plotChrRegions.R coverageDiff.R plotMeanCoverage.R
biocViews: HighThroughputSequencing,QualityControl
Packaged: 2012-10-02 05:02:58 UTC; biocbuild
Built: R 2.15.1; ; 2012-10-02 09:13:03 UTC; unix
