variant allelic fraction

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19 months ago

Jom • 0

Hello,

I have a question, how can I find the variant allelic fraction from VEP file?

thanks in advanced

vep • 1.2k views

ADD COMMENT • link updated 18 months ago by Ram 44k • written 19 months ago by Jom • 0

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this is not a field provided by VEP.

ADD REPLY • link 19 months ago by Pierre Lindenbaum 164k

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OK how can I calculate it from the VEP file?

ADD REPLY • link updated 18 months ago by Ram 44k • written 19 months ago by Jom • 0

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Correct way to calculate VAF (Variant allele fraction) from a VCF file

ADD REPLY • link 19 months ago by Pierre Lindenbaum 164k

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Ok but I have only VEP files I don't have vcf files

ADD REPLY • link updated 18 months ago by Ram 44k • written 18 months ago by Jom • 0

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IMHO this is like asking for the cow when you only have a steak :-)

ADD REPLY • link 18 months ago by Pierre Lindenbaum 164k

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Cross-posted on bioinfo SE: https://bioinformatics.stackexchange.com/questions/21118/how-to-calculate-the-variant-allelic-fraction-vaf

OP, if we can't help you on one website because you don't have necessary data, we can't help you just because you ask a different forum that most people here are also on.

ADD REPLY • link 18 months ago by Ram 44k

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