veqtl-mapper in a replication study --perm option
0
0
Entering edit mode
7.2 years ago
ATCG ▴ 400

Hi, I am trying to use veqtl-mapper in a replication study. In my original population, I found one veqtl and I am using a second population to replicate this finding using the veqtl-SNP and also its LD proxies. My question is, do I need to permute? If not how can veqtl-mapper be run with permuting, my guess is that I set --perm 0 but would like to confirm this. Also, I would like to make sure that the program is not correcting automatically for all the SNPs included in the vcf file, that is that the p-value is an uncorrected p-value. Thank you!

veqtl-mapper permutations replication LD • 1.2k views
ADD COMMENT

Login before adding your answer.

Traffic: 2318 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