Usage

On our system the pfamscan module is an alias for the hmmer module as we installed pfamscan within hmmer. Please see https://docs.rc.ufl.edu/software/apps/hmmer/ for more information.

You don't have to provide the -dir argument to the pfam_scan.pl command as we configured it to use the default location of the most current Pfam reference data release at /data/reference/reference/pfam/current/.