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vcf2maf v1.6.16
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@ckandoth ckandoth released this 23 Oct 14:17
v1.6.16
7f3bd61
  • Support for newest VEP (v91), while remaining compatible with older VEP (v88 or older).
  • vcf2maf/maf2maf now report gnomAD AFs, though they're not yet used for any filtering.
  • Option to disable common_variant tagging: Set --filter-vcf 0 in vcf2maf/maf2maf.
  • HGVSp_Short will now use = for silent muts. E.g. p.T125= instead of p.T125T.
  • vcf2maf will no longer annotate ALTs seen in both tumor and normal GT.
  • maf2vcf handles multiallelic sites better.
  • maf2vcf generates VCFs that should pass the EBI validator.
  • New uniprot isoform list from Ensembl Genes 91 in http://grch37.ensembl.org/biomart
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