trinity

Summary

Software Description

Trinity is a program for the efficient and robust de novo (no reference genome required) reconstruction of transcriptomes from RNA-seq data. Trinity produces a large number of intermediate files (500,000 to 1,000,000). The MSI filesystem limits each group to a maximum of 1 million files. Therefore it is recommended that you configure Trinity to write output to /scratch (using the option “–output /scratch/trinity”), where there is no file number limit, and copy the fasta assembly file back to your group folder when Trinity has finished.

General Linux

To load this module for use in a Linux environment, you can run the command:

module load trinityrnaseq

Depending on where you are working, there may be more than one version of trinityrnaseq available. To see which modules are available for loading you can run:

module avail trinityrnaseq