Put FILTER in FILTER field, not INFO

[bangbangphil]

Hi,

Is there a way to write to FILTER field column? I know I can get FILTER fields from the input VCF writtten in INFO as a list value, put what I would need is to write a particular FILTER tag from the input VCF into the FILTER column of the output VCF. Is that possible?

thank you for your help,

Philippe

[brentp]

Hi, that's not possible. You'd have to use a downstream script to take the (newly added) filter from the INFO and put it in the FILTER field.

[bangbangphil]

Ah ok, guess I'll do just that. Thanks for the quick reply!

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________________________________ De : Brent Pedersen <notifications@github.com> Envoyé : 3 novembre 2020 09:00 À : brentp/vcfanno <vcfanno@noreply.github.com> Cc : Philippe <bangbangphil@hotmail.ca>; Author <author@noreply.github.com> Objet : Re: [brentp/vcfanno] Put FILTER in FILTER field, not INFO (#130) Hi, that's not possible. You'd have to use a downstream script to take the (newly added) filter from the INFO and put it in the FILTER field. — You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub<#130 (comment)>, or unsubscribe<https://github.com/notifications/unsubscribe-auth/ALX66CIX7FZL2YSD5UJJE7TSOAEHDANCNFSM4TIYZXMA>.

[brentp]

no problem. I do see the utility of what you are requesting, but I don't want vcfanno to collapse under its own complexity.