Package: CAGEr
Title: Analysis of CAGE (Cap Analysis of Gene Expression) sequencing
        data for precise mapping of transcription start sites and
        promoterome mining
Version: 1.2.9
Date: 23-08-2013
Author: Vanja Haberle, Department of Biology, University of Bergen, Norway <vanja.haberle@bio.uib.no>
Maintainer: Vanja Haberle <vanja.haberle@bio.uib.no>
Imports: Rsamtools, GenomicRanges, IRanges, data.table, beanplot,
        rtracklayer, som, VGAM
Depends: methods, R (>= 2.15.0), BSgenome, BSgenome.Mmusculus.UCSC.mm9
Suggests: BSgenome.Drerio.UCSC.danRer7, BSgenome.Hsapiens.UCSC.hg18,
        FANTOM3and4CAGE
Enhances: parallel
Description: Preprocessing of CAGE sequencing data, identification and normalization of transcription start sites and downstream analysis of transcription start sites clusters (promoters).
License: GPL-3
biocViews: Preprocessing, Sequencing, HighThroughputSequencing,
        Transcription, Clustering, Visualization
Collate: AllClasses.R GetMethods.R ImportFunctions.R ImportMethods.R
        CorrelationMethods.R ExportFunctions.R ExportMethods.R
        MergingMethods.R NormalizationFunctions.R
        NormalizationMethods.R ExpressionProfilingMethods.R
        ClusteringFunctions.R ClusteringMethods.R
        CumulativeDistributionFunctions.R
        CumulativeDistributionMethods.R QuantileWidthFunctions.R
        QuantileWidthMethods.R AggregationFunctions.R
        AggregationMethods.R ShiftingFunctions.R ShiftingMethods.R
Packaged: 2013-09-03 07:41:18 UTC; biocbuild
Built: R 3.0.1; ; 2013-09-03 11:58:11 UTC; windows
