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szpiech / selscan

Haplotype based scans for selection
GNU General Public License v3.0
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norm xpehh top windows #115

Closed JuanitaGil closed 4 weeks ago

JuanitaGil commented 1 month ago

Hi Zach,

I ran selscan xpehh and normalized the output by windows of 10Kb using the default value of qbins. We have several windows in the top 1% and I was wondering if it's possible to obtain windows in the top 0.5 and 0.1% as well, so that we have less candidate regions to examine.

Thank you! Juanita

szpiech commented 1 month ago

Hi Juanita,

This is a feature I should add to norm, but right now it only reports 1% and 5%. In principle, you can calculate this yourself, by pooling windows using the #nsnp bins and calculating the quantile for each bin. Although I realize this is a bit of a pain. Sorry for the hassle.

Zachary

Le mar. 4 juin 2024 à 09:41, JuanitaGil @.***> a écrit :

Hi Zach,

I ran selscan xpehh and normalized the output by windows of 10Kb using the default value of qbins. We have several windows in the top 1% and I was wondering if it's possible to obtain windows in the top 0.5 and 0.1% as well, so that we have less candidate regions to examine.

Thank you! Juanita

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JuanitaGil commented 4 weeks ago

Thanks Zach. I can try that.

Juanita