rsem-software
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RSEM
- RSEM(RNA-Seq by Expectation-Maximization) is an accurate quantification of gene and isoform expression from RNA-Seq data.
v1.2.9
- Version: 1.2.9
- Added: February, 2015
Usage
- Show all available versions of RSEM
module avail RSEM
- Load RSEM module:
module load RSEM/1.24
Installation
- clone RSEM repo & compile it
git clone https://github.com/bli25wisc/RSEM.git cd RSEM git checkout v1.2.9 module load bowtie2/2.2.3 bowtie/1.1.1 make sudo mkdir -p /export/apps/RSEM/1.2.9/ sudo cp -r . /export/apps/RSEM/1.2.9/
- RSEM module file
#%Module1.0 ##################################################################### ## ## RSEM Modulefile ## By James Oguya, j.oguya@cgiar.org ## February, 2015 ## set appname RSEM set version 1.2.9 set prefix /export/apps/${appname}/${version} set exec_prefix ${prefix} set url "http://deweylab.biostat.wisc.edu/rsem/" set msg "RSEM(RNA-Seq by Expectation-Maximization): accurate quantification of gene and isoform expression from RNA-Seq data.\nRSEM Official Site: $url\n" module-whatis "$msg" proc ModulesHelp { } { puts stderr "$msg" } conflict RSEM prepend-path PATH ${exec_prefix} # load RSEM dependencies - bowtie2/2.2.3, bowtie/1.1.1, R/3.1.0 if { ! [is-loaded bowtie2/2.2.3] } { module load bowtie2/2.2.3 } if { ![is-loaded bowtie/1.1.1] } { module load bowtie/1.1.1 } if { ![is-loaded R/3.1.0] } { module load R/3.1.0 }
- deploy the new module using ansible
ansible-playbook site.yml -u provisioning -K -s --limit=compute --tags=modules
rsem-software.1423654471.txt.gz · Last modified: 2015/02/11 11:34 by joguya