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szpiech / selscan

Haplotype based scans for selection
GNU General Public License v3.0
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Why the XP-EHH process skip the first around 100 SNPs #38

Closed Victor0122 closed 5 years ago

Victor0122 commented 5 years ago

Hi I am running the SELSCAN for a while. Then I jest recognized that if I run the default setting of selscan, the output result that will skip the first 100 SNPs, I dont know why this happen? Do you have any suggestions?

szpiech commented 5 years ago

If the computation reached the end of a chromosome or a large gap before reaching the --cutoff it will throw out that score. If you wish to retain these scores, you can use the --trunc-ok option.