Does anyone knows how to download or get only snp from hapmap EUR population for gtex v8 models?
I tried to get the snp annotation file from gtex portal and downloaded the lookup table in order to get the snp_annotation file.
One thing, though. Nowadays, there are more comprehensive options out there. Two that I recommend, for various reasons, are:
Check out Ensembl VEP. Steps: click link, paste in an rsID > run job > once job is finished, you will see a table in your browser. You can download this, including columns broken out by global MAF, then MAF for each ancestry specifically. Example result for a variant I just ran.
If you want to take a deeper dive into a confined genomic locus (max 50,000bp in length) then Kaviar is a good option. This database contains more variants than dbSNP, even, and includes allele fractions down to very low percentages.