iRAP is a flexible RNA-seq analysis pipeline that allows the user to select and apply their preferred combination of existing tools for mapping reads, quantifying expression and testing for differential expression. Depending upon the application, iRAP can be used to quantify expression at the gene, exon or transcript level.
module spider irap to find out what environment modules are available for this application.
- HPC_IRAP_DIR - installation directory
To run iRAP use the following commands
module load irap launch_irap <executable> <arguments>
See iRAP wiki for the instructions: https://github.com/nunofonseca/irap/wiki