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szpiech / selscan

Haplotype based scans for selection
GNU General Public License v3.0
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Interpreting positive and negative XP-EHH values #39

Closed parejom closed 5 years ago

parejom commented 5 years ago

Hi there,

I wonder what the negative and positive XP-EHH values mean. In the original publication of Sabeti et al 2007, they state that positive values reflect recent selection in population A and negative values represent selection in the population B. In selscan, the input file are --hap and --ref: So would a negative EHH-value mean likely selection in the reference population?

Thanks for clarification.

And btw thank you for this great program!

Best wishes

szpiech commented 5 years ago

Yes, you are correct, negative values suggest the direction of the —ref population. Thanks!