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

rGADEM

de novo motif discovery

Bioconductor version: 2.13

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>

Installation

To install this package, start R and enter:

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

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("rGADEM")

 

PDF	R Script	The rGADEM users guide
PDF		Reference Manual

Details

biocViews	ChIPchip, ChIPseq, GenomicSequence, Microarray, MotifDiscovery, Sequencing, Software
Version	2.10.0
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 Archives

Follow Installation instructions to use this package in your R session.

Package Source	rGADEM_2.10.0.tar.gz
Windows Binary	rGADEM_2.10.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard)	rGADEM_2.10.0.tgz
Browse/checkout source	(username/password: readonly)
Package Downloads Report	Download Stats