Annovar
ANNOVAR is an efficient software tool to utilize update-to-date information to functionally annotate genetic variants detected from diverse genomes (including human genome hg18, hg19, hg38, as well as mouse, worm, fly, yeast and many others). Given a list of variants with chromosome, start position, end position, reference nucleotide and observed nucleotides, ANNOVAR can perform gene-based annotation, region-based annotation, filter-based annotation and more.
Documentation
Usage
To see what versions of Annovar are available type
module avail annovar
To see what other modules are needed, what commands are available and how to get additional help type
module help annovar
To use Annovar, include a command like this in your batch script to load the Annovar module:
module load annovar
Be sure you also load any other modules needed, as listed by the module help annovar command.