I have a list of millions of SNPs (rs IDs) and I wanted to know if these are highly conserved sites based on conservation metrics, for example: PhastCons, GERP or SiPhy scores.
I was trying to find precomputed scores for these metrics, but wasn't very successful at finding them. I could find precomputed conservation scores for the GERP metric, but I wanted to contrast these scores with others and that's why I was asking for help.
Thank you.
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written
by
GabrielMontenegro
1 answer
It will be easier to do it by using ANNOVAR filter-based annotation
http://annovar.openbioinformatics.org/en/latest/user-guide/filter/
You may use dbNSFP database of ANNOVAR for your current purpose. But there are many other DBs that might interest you, just have look.
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