How to convert Haps file to vcf file?
0
0
Entering edit mode
10 days ago
SeoGyun • 0

I got the haps file and sample file after pre-phasing with eagle2. After that, I tried to switch to a vcf file using SHAPEIT4, but it keeps saying that there is no index file. How can I easily convert to a vcf file? Thank you

pre-phasing GWAS imputation • 230 views
ADD COMMENT
0
Entering edit mode

unzip haps then:

   bin/shapeit \
    -convert \
    --input-haps {haps_prefix} \
    --thread {cpus} \
    --output-vcf {phased_vcf};
ADD REPLY

Login before adding your answer.

Traffic: 2190 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