Assigning haplotypes to individuals
1
0
Entering edit mode
5.3 years ago
Floris Brenk ★ 1.0k

Hi all,

I have a large genotype dataset and using this I created haplotypes and haploblocks in plink (http://pngu.mgh.harvard.edu/~purcell/plink/haplo.shtml). Now I want to assign these haplotypes to the individuals and to do some manual eQTL analyses. Does anyone know whether this is possible in plink or other software?

Like output (or similar): Sample1 haplo1/haplo4 Sample2 haplo2/haplo2 etc.

plink haplotype • 1.5k views
ADD COMMENT
1
Entering edit mode
5.2 years ago
Floris Brenk ★ 1.0k

Solved :)

http://pngu.mgh.harvard.edu/~purcell/plink/haplo.shtml#hap5

plink --file mydata --hap myfile.hlist --hap-phase

ADD COMMENT

Login before adding your answer.

Traffic: 2384 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