rGADEM

de novo motif discovery

Bioconductor version: Development (3.0)

rGADEM is an efficient de novo motif discovery tool for large-scale genomic sequence data. It is an open-source R package, which is based on the GADEM software.

Author: Arnaud Droit, Raphael Gottardo, Gordon Robertson and Leiping Li

Maintainer: Arnaud Droit <arnaud.droit at crchuq.ulaval.ca>

To install this package, start R and enter:

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

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

    citation("rGADEM")

Documentation

PDF   Reference Manual

Details

biocViews ChIPSeq, ChIPchip, GenomicSequence, Microarray, MotifDiscovery, Sequencing, Software
Version 2.13.0
In Bioconductor since BioC 2.6 (R-2.11)
License Artistic-2.0
Depends R (>= 2.11.0), Biostrings, IRanges, BSgenome, methods, seqLogo
Imports Biostrings, IRanges, methods, graphics, seqLogo
Suggests BSgenome.Hsapiens.UCSC.hg18
System Requirements
URL
Depends On Me
Imports Me MotIV
Suggests Me

Package Downloads

Package Source rGADEM_2.13.0.tar.gz
Windows Binary rGADEM_2.13.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) rGADEM_2.13.0.tgz
Mac OS X 10.9 (Mavericks)
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