brianjohnhaas
commented
8 months ago 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
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
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Brian J. Haas The Broad Institute http://broadinstitute.org/~bhaas http://broad.mit.edu/~bhaas
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