Include VAF in the output #37

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QichenFU opened this issue Mar 6, 2025 · 1 comment

QichenFU commented Mar 6, 2025

Hi, may I ask if SVDSS could include VAF in the output VCF file?

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ldenti commented Apr 19, 2025

Hi, sorry for the late reply. I think the easiest way to achieve this is:

run SVDSS
genotype the output VCF using e.g. kanpig
run bcftools to include the VAF

bcftools +fill-tags SVDSS2-q0.98-w2.vcf.gz -- -t VAF

I'm currently working on SVDSS v2.1.0 and I'm trying to automate these three steps but it may require some time.

Let me know if this might do what you need.

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