transdecoder-software
TransDecoder
- TransDecoder identifies candidate coding regions within transcript sequences, such as those generated by de novo RNA-Seq transcript assembly using Trinity, or constructed based on RNA-Seq alignments to the genome using Tophat and Cufflinks.
v2.0.1
- Version: 2.0.1
- Added: February, 2015
Usage
- Show all available versions of TransDecoder
module avail TransDecoder
- Load TransDecoder module:
module load TransDecoder/2.0.1
Installation
- clone TransDecoder repo & compile it
git clone git@github.com:TransDecoder/TransDecoder.git git checkout 2.0.1 make sudo mkdir -p /export/apps/TransDecoder/2.0.1/ sudo cp -r . /export/apps/TransDecoder/2.0.1/
- TransDecoder module file
#%Module1.0 ##################################################################### ## ## TransDecoder Modulefile ## By James Oguya, j.oguya@cgiar.org ## February, 2015 ## set appname TransDecoder set version 2.0.1 set prefix /export/apps/${appname}/${version} set exec_prefix_util ${prefix}/util set exec_prefix_bin ${exec_prefix_util}/bin set url "http://transdecoder.github.io/" set msg "TransDecoder identifies candidate coding regions within transcript sequences, such as those generated by de novo RNA-Seq transcript assembly using Trinity, or constructed based on RNA-Seq alignments to the genome using Tophat and Cufflinks.\nTransDecoder Official Site: $url\n" module-whatis $msg proc ModulesHelp { } { puts stderr "$msg" } conflict TransDecoder prepend-path PATH ${prefix} prepend-path PATH ${exec_prefix_util} prepend-path PATH ${exec_prefix_bin}
- deploy the new module using ansible
ansible-playbook site.yml -u provisioning -K -s --limit=compute --tags=modules
transdecoder-software.txt · Last modified: 2015/02/11 11:39 by joguya