Question: How to create reference allele file in plink? (~50 SNPs)
gravatar for eyb
5.0 years ago by
Russian Federation
eyb180 wrote:

How to create reference allele file? How it should look like? I need to convert plink ped/map files to VCF and reference allele file is part of the pipeline.


I have the same data in impute2 GEN format. So I think I will be able to pull out information on which allele is a reference from there. However I am not sure about reference allele file formatting. 

Can anyone show me an example of the file? 



plink reference allele impute2 • 2.7k views
ADD COMMENTlink written 5.0 years ago by eyb180
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1389 users visited in the last hour