Closed jkreinz closed 4 years ago
For normalization, you will want to use the norm
program. Since all contigs/chrs should be normalized together, you should pass all of them to norm
at the same time. e.g. norm --ihs --files chr1.ihs.out chr2.ihs.out ... chrN.ihs.out
Hi again Zack,
Sorry to bug you again but I've gone through the manual and the paper and am still looking for clarification.
The manual says
<locusID > <physicalPos > <’1’ freq > <ihh1 > <ihh0 > < unstandardized iHS >
is the format of the iHS output. From the paper and manual, I would have expected a standardized iHS column as well. Is this not explicity output by selscan?Thanks! Julia