Question: Assigning haplotypes to individuals
0
gravatar for Floris Brenk
4.2 years ago by
Floris Brenk940
USA
Floris Brenk940 wrote:

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 • 1.3k views
ADD COMMENTlink modified 4.2 years ago • written 4.2 years ago by Floris Brenk940
1
gravatar for Floris Brenk
4.2 years ago by
Floris Brenk940
USA
Floris Brenk940 wrote:

Solved :)

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

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

ADD COMMENTlink written 4.2 years ago by Floris Brenk940
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