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dbSNP137 and Bundle

MartaMarta Posts: 11Member

I downloaded the bundle b37 and I used the dbSNP137.b37 database in the variant call with UnifiedGenotyper. I obtained different variants with the own "rs" but I cannot find the frequency (MAF) usually reported in the database. I know that by UCSC it is possible to download a db with common SNP (MAF > 5%) or all SNP (MAF >1%). do you know which is the db in the bundle or where I can find this information?

Thanks

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Answers

  • Geraldine_VdAuweraGeraldine_VdAuwera Posts: 7,840Administrator, GATK Dev admin

    We don't have that available, so you'll need to get that from another source. Maybe UCSC provides it.

    Geraldine Van der Auwera, PhD

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