Question: Haplotype Construction Using Phase Version 2.1
gravatar for oxon
5.8 years ago by
United Kingdom
oxon20 wrote:

It would be great if someone can help with Haplotype construction using PHASE version 2.1. I have genotyped data in Plink format and not really sure how to convert it to PHASE version 2.1 INPUT format in easy way. Thanks.

haplotype • 3.1k views
ADD COMMENTlink written 5.8 years ago by oxon20

You can use plink for recoding plink format to fastPHASE by ''--recode-fastphase'' option in PLINK. It’s similar to PHASE input file format, you should just add S for SNP and M for microsatellite marker on 4th raw as locus type

ADD REPLYlink written 5.6 years ago by mary210

A good idea, but it seems multiallelic sites in vcf would be converted to missing alleles...

ADD REPLYlink written 14 months ago by shuaibing0
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