Remove --af_esp flag as it's deprecated #324
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This flag stops vcf2maf from running with vep 107 (haven't tested it for earlier versions)
Remove --af_esp flag as it's deprecated
This was referenced Aug 26, 2022
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Thanks for this. Unfortunately, vcf2maf's output became the standard MAF format that includes two columns for these ESP allele frequencies. So, we'll leave the columns in, but it will never have data in the rows. The only think pending is to remove the ESP data from the test dataset, so that the Travis CI tests can pass. I'd appreciate if you can add this to the PR. If not, the earliest I can get to it is January. |
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This flag stops vcf2maf from running with vep 107 (haven't tested it for earlier versions)