DOI: 10.18129/B9.bioc.rGADEM  

de novo motif discovery

Bioconductor version: Release (3.17)

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>

Citation (from within R, enter citation("rGADEM")):


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PDF R Script The rGADEM users guide
PDF   Reference Manual


biocViews ChIPSeq, ChIPchip, Microarray, MotifDiscovery, Sequencing, Software
Version 2.48.0
In Bioconductor since BioC 2.6 (R-2.11) (13.5 years)
License Artistic-2.0
Depends R (>= 2.11.0), Biostrings, IRanges, BSgenome, methods, seqLogo
Imports Biostrings, GenomicRanges, methods, graphics, seqLogo
Suggests BSgenome.Hsapiens.UCSC.hg19, rtracklayer
Depends On Me
Imports Me TCGAWorkflow
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package rGADEM_2.48.0.tar.gz
Windows Binary rGADEM_2.48.0.zip
macOS Binary (x86_64) rGADEM_2.48.0.tgz
macOS Binary (arm64) rGADEM_2.48.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/rGADEM
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/rGADEM
Bioc Package Browser https://code.bioconductor.org/browse/rGADEM/
Package Short Url https://bioconductor.org/packages/rGADEM/
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Old Source Packages for BioC 3.17 Source Archive

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