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

 

  • Bridges

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.

User Information

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Send mail to remarks@psc.edu or call the PSC hotline: 412-268-6350.