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Haplotype or genotype data for F_ST (Read 1602 times)
avilella
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Haplotype or genotype data for F_ST
Dec 23rd, 2007 at 5:10am  
Hi all,

Which of the methods used to calculate F_ST require haplotype data and which genotype data?
Do all of them assume phased SNPs in the sequences?

Cheers,

    Albert.
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Sergei
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Re: Haplotype or genotype data for F_ST
Reply #1 - Jan 3rd, 2008 at 4:17pm  
Dear Albert,

In viruses this doesn't matter (since they are not polyploid); it's been a while since I read the original papers, but I think they all assume that you have haplotype data (phased SNPs), because they need to compute genetic distances accurately. I would check the originals though.

Cheers,
Sergei
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