salmon

Salmon is a tool for fast transcript quantification from RNA-seq data. It requires a set of target transcripts (either from a reference or de-novo assembly) to quantify.

• Latest Version: 1.3.0
• Added: September, 2016
• Updated: October, 2020
• Link: https://salmon.readthedocs.io/en/latest/salmon.html

See which versions of salmon are available:

$ module avail salmon

Load one version of salmon into your environment and run it:

$ module load salmon/1.3.0
$ salmon

Notes from the sysadmin during installation:

$ cd /tmp
$ wget https://github.com/COMBINE-lab/salmon/releases/download/v1.3.0/salmon-1.3.0_linux_x86_64.tar.gz
$ tar xf salmon-1.3.0_linux_x86_64.tar.gz
$ sudo cp -r salmon-latest_linux_x86_64  /export/apps/salmon/1.3.0