Package: rnaSeqMap
Type: Package
Title: rnaSeq analyses using xmapcore database
Version: 1.0.0
Date: 2010-10-05
Author: Anna Lesniewska <alesniewska@cs.put.poznan.pl>; Michal
        Okoniewski <michal@fgcz.ethz.ch>
Maintainer: Michal Okoniewski <michal@fgcz.ethz.ch>
Depends: R (>= 2.11.0), methods, xmapcore
Imports: Biobase, IRanges, edgeR, DESeq, DBI, RMySQL (>= 0.6-0)
Suggests:
Description: Provides means of analysis for RNAseq data, used together
        with genomic annotation from Ensembl. Requires an xmapcore
        database in MySQL as a back-end, which is also a storage for
        sequencing reads. Front-end analyses include transformations of
        the coverage function, splicing analysis, finding irreducible
        regions with the two-sliding-windows algorithm and genomic
        region visualizations.
License: GPL-2
URL:
biocViews: Annotation, Bioinformatics, ReportWriting, Transcription,
        GeneExpression, DifferentialExpression,
        HighThroughputSequencing, RNAseq, SAGE, Visualization
Collate: zzz.R utils.R plots.R NucleotideDistr.R SeqReads.R NDplots.R
        NDtransforms.R pipelines.R
Packaged: 2010-10-18 11:51:40 UTC; biocbuild2
Built: R 2.12.0; i386-pc-mingw32; 2010-10-18 16:07:46 UTC; windows
Archs: i386, x64
