dbSNP frequence question

[teresa1997]

Hi,
I have a question about annotating with dbSNP. You write that you use dbSNP and gnomAD to annotate common variants, so do you filter dbSNP variants in advance for the ones that are not rare? Because in the output vcf I can't find the frequency for dbSNP annotated variants and I'm trying to understand if all those annotated in dbSNP are common or not.
Thank you for your reply

Teresa

[brianjohnhaas]

Hi, The dbsnp annotations are limited to those with at least 1% pop AF. For gnomad, it may go down to 0.1%. Hope this helps

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On Fri, Feb 9, 2024 at 11:45 AM Teresa ***@***.***> wrote: Hi, I have a question about annotating with dbSNP. You write that you use dbSNP and gnomAD to annotate common variants, so do you filter dbSNP variants in advance for the ones that are not rare? Because in the output vcf I can't find the frequency for dbSNP annotated variants and I'm trying to understand if all those annotated in dbSNP are common or not. Thank you for your reply Teresa — Reply to this email directly, view it on GitHub <#131>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/ABZRKXYMBGNGCPHYDEGHYK3YSZHDJAVCNFSM6AAAAABDBYJO62VHI2DSMVQWIX3LMV43ASLTON2WKOZSGEZDONJQGE2TKMY> . You are receiving this because you are subscribed to this thread.Message ID: ***@***.***>

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