ArrayExpressHTS

ArrayExpress High Throughput Sequencing Processing Pipeline

Bioconductor version: 2.10

RNA-Seq processing pipeline for public ArrayExpress experiments or local datasets

Author: Angela Goncalves, Andrew Tikhonov

Maintainer: Angela Goncalves <filimon at ebi.ac.uk>, Andrew Tikhonov <andrew at ebi.ac.uk>

To install this package, start R and enter:

    source("http://bioconductor.org/biocLite.R")
    biocLite("ArrayExpressHTS")

To cite this package in a publication, start R and enter:

    citation("ArrayExpressHTS")

Documentation

PDF R Script ArrayExpressHTS: RNA-Seq Pipeline for transcription profiling experiments
PDF   Reference Manual
Text   NEWS

Details

biocViews HighThroughputSequencing, RNAseq, Sequencing, Software
Depends sampling, Rsamtools(>= 1.3.32), snow
Imports Biobase, Biostrings, DESeq, GenomicRanges, Hmisc, IRanges, R2HTML, RColorBrewer, Rsamtools, ShortRead, XML, biomaRt, edgeR, grDevices, graphics, methods, rJava, stats, svMisc, utils
Suggests
System Requirements
License Artistic License 2.0
URL
Depends On Me
Imports Me
Suggests Me
Version 1.6.0
Since Bioconductor 2.8 (R-2.13)

Package Downloads

Package Source ArrayExpressHTS_1.6.0.tar.gz
Windows Binary
MacOS 10.5 (Leopard) binary ArrayExpressHTS_1.6.0.tgz
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