VCF2MAF converts a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms.
- vcf2maf home on github
- See the Usage section for a pointer to more relevant links.
To see what versions of vcf2maf are available type
module avail vcf2maf
To see what other modules are needed, what commands are available and how to get additional help type
module help vcf2maf
For more help and links to more documentation, load the modules recommended by the
module help vcf2maf command and then type
perl $VCF2MAF_HOME/vcf2maf.pl --man
To use vcf2maf, include a command like this in your batch script or interactive session to load the vcf2maf module:
module load vcf2maf
Be sure you also load any other modules needed, as listed by the
module help vcf2maf command.