non standardised versus standardised

[paolo002]

Hi

Do the sign ( + or -) in the iHS standardised column correspond to selection on REF/ALT allele similarly to the non standardized iHS column or it is just a measure of how do the values deviate from the mean? if + means significant if - non significant?

[prenderj]

Hi

I would suggest checking the original iHS paper for how to interpret the standardised iHS results.

https://journals.plos.org/plosbiology/article?id=10.1371/journal.pbio.0040072

But in brief significance isnt determined by sign. Standardised iHS represent how many standard deviations a particular variant's unstandardised iHS is above (if positive) or below (if negative) the mean of other variants in the genome in the same allele frequency bin. They are therefore analogous to the standard score:

https://en.wikipedia.org/wiki/Standard_score

Cheers James

On Wed, 27 Nov 2019 at 09:38, paolo002 notifications@github.com wrote:

Hi

Do the sign ( + or -) in the iHS standardised column correspond to selection on REF/ALT allele similarly to the non standardized iHS column or it is just a measure of how do the values deviate from the mean? if + means significant if - non significant?

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[paolo002]

Thanks a lot for the clear explanation