Neale Lab results in VCF format
0
0
Entering edit mode
2.3 years ago
sshen2021 • 0

Hi all,

Was wondering if anyone knew whether there exists a VCF version of the Neale Lab 2018 GWAS variants? I can’t seem to find one on the website but I might be mistaken…

Alternatively, is it possible to convert the variant file (located here https://docs.google.com/spreadsheets/d/1kvPoupSzsSFBNSztMzl04xMoSC3Kcx3CrjVf4yBmESU/edit#gid=178908679) to VCF format? I have never done this before so I'm not sure where to start...

Thank you for your help!

vcf snp gwas • 904 views
ADD COMMENT
0
Entering edit mode

A google query returns: http://www.nealelab.is/uk-biobank

ADD REPLY
0
Entering edit mode

How does this answer OP's question? I think this should be a comment, not an answer and I'm moving it to one now.

ADD REPLY
0
Entering edit mode

due to the links found in that site and the linked github repository, in my view, it constitutes an answer to the question.

Best, VAL

ADD REPLY
0
Entering edit mode

I disagree. It's a general pointer to a link that could answer OP's question, but it's not a definite answer. Such pointers belong in comments.

ADD REPLY
0
Entering edit mode

Why do you need it in VCF format? You can create a VCF out of the TSV but most VCF-specific information will need to be extrapolated/filled-in with fake values. Can your pipeline work with tabular data?

If you can't do without VCF, email the Neale Lab (as stated in the file you linked to): nealelab dot ukb at gmail dot com

ADD REPLY

Login before adding your answer.

Traffic: 1894 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