VCFtools provides easily accessible methods for working with complex genetic variation data in the form of VCF files.
To see what versions of VCFTools are available type
module avail vcftools
To see what other modules are needed, what commands are available and how to get additional help type
module help vcftools
To use VCFTools, include a command like this in your batch script to load the VCFTools module:
module load vcftools