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CCICB / vcf2mafR

Convert VCFs and VCF-related formats to MAF
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df2maf convert missing to SILENT #22

Closed selkamand closed 11 months ago

selkamand commented 11 months ago

mutationtypes package update allows mutation_types_so/pave_to_maf to optionally interpret empty strings and NA values as 'silent' mutations

We should pass these options to df2maf and vcf2maf