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openvax / vaxrank

Ranked vaccine peptides for personalized cancer immunotherapy
Apache License 2.0
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How many variant callers can be used with vaxrank? #167

Closed davidroberson closed 6 years ago

davidroberson commented 6 years ago

We may try to run an ensemble approach to get the somatic calls. Thank you

julia326 commented 6 years ago

@davidroberson You can use vaxrank with any number of VCFs - it supports taking a union of variants from multiple somatic variant callers. The --vcf argument is repeated, so you can invoke vaxrank with:

vaxrank --vcf <vcf1> --vcf <vcf2> --bam <tumor RNA BAM> ...