Where to find vcf of dbsnp build 144 ?
0
0
Entering edit mode
9 weeks ago
nanodano ▴ 10

Hi everyone,

I have zipped vcf files that I would like to annotate using hg19 bsnp144. I have bed files for each chromosome but, based on other biostar answers (How to add rsIDs to VCF?), it seems it is easier to use vcf file to annotate vcfs.

How can I create a vcf that would work with bcftools OR where can I find a vcf file for my specific build?

Thanks

vcf dbsnp snp144 annotation • 320 views
ADD COMMENT
0
Entering edit mode

Why do you need v144 specifically? It's not in NCBI's FTP archive so getting it might be challenging.

ADD REPLY
0
Entering edit mode

I would like to annotate a vcf using bcftools. I'm not stuck with bcftools specifically, it just seemed like the easiest way. Do you have another recommendation on annotating a vcf by any chance?

ADD REPLY
1
Entering edit mode

Use a more recent version of dbSNP. The problem is with the dbSNP version, not with bcftools.

ADD REPLY

Login before adding your answer.

Traffic: 1622 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6