VCF2MAF

VCF2MAF converts a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms.

Documentation

• vcf2maf home on github

  See the Usage section for a pointer to more relevant links.

Usage on Bridges-2

To see what versions of vcf2maf are available, and if there is more than one, which is the default, along with some help, type

module spider vcf2maf

To see what other modules are needed, what commands are available and how to get additional help type

module help vcf2maf

To use vcf2maf, include a command like this in your batch script or interactive session to load the vcf2maf module: (note ‘module load’ is case-sensitive):

module load vcf2maf