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szpiech / selscan

Haplotype based scans for selection
GNU General Public License v3.0
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EHH Statistics #70

Closed Daluser1 closed 2 years ago

Daluser1 commented 2 years ago

Dear Szpiech,

I am working on a dataset on which there is no information on the ancestral/derived state to encode 0 / 1 variants for analyses. EHH statistics does not require the definition of ancestral alleles? So, is it can be used in a situation where the ancestral/derived state is unknown?

Thanks in Advance!

szpiech commented 2 years ago

Hello,

Yes you can use the EHH statistic without ancestral/derived information. The haplotype decay curves will be based on the ref/alt allele haplotypes at the focal SNP.

-Zachary

Le jeu. 17 févr. 2022 à 1:12 AM, Daluser1 @.***> a écrit :

Dear Szpiech,

I am working on a dataset on which there is no information on the ancestral/derived state to encode 0 / 1 variants for analyses. EHH statistics does not require the definition of ancestral alleles? So, is it can be used in a situation where the ancestral/derived state is unknown?

Thanks in Advance!

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Daluser1 commented 2 years ago

Thank you so much for your response. I appreciate it!