This is a test version of Biostars. For the public version, visit https://www.biostars.org.
latest dbSNP (ncbi) which genome assembly

Hello:

Apologies if this has been asked before, I've searched the forum and didn't find it.

I've downloaded the latest dbSNP from ncbi, here is the description: https://ftp.ncbi.nih.gov/snp/latest_release/release_notes.txt

I am downloading the following files: https://ftp.ncbi.nih.gov/snp/latest_release/VCF/GCF_000001405.40.gz https://ftp.ncbi.nih.gov/snp/latest_release/VCF/GCF_000001405.40.gz.tbi

However, it doesn't say which genome assembly it corresponds to (hg19 or hg38), I am assuming it is the later but will like to confirm.

Thank you.

ncbi dbsnp assembly genome
• 2,961 views • link
written by jaime alvarez • jaime alvarez

1 answer

However, it doesn't say which genome assembly it corresponds to (hg19 or hg38),

$ wget -qO - "https://ftp.ncbi.nih.gov/snp/latest_release/VCF/GCF_000001405.40.gz" | gunzip -c | grep reference -m1 
##reference=GRCh38.p14
• 0 views • link
written by Pierre Lindenbaum Pierre Lindenbaum

Log in to answer this question.

More posts like this