How to calculate the pi value of each contig in a genome?

[kodragonP]

Hi, I called the SNPs of one genome from a metagenome. The pi value of the genome was given in the intradiv.txt file, but I can not find the pi of each contig. Is there any way to show this data?
Thank you for your software, it is very easy to use.

[andand]

Hi! You can get it from the *.intradiv-per-locus.txt file, by averaging across loci for the same contig. Contig IDs are given in the first column of this file. Hope that helps Anders

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On Tue, Jun 7, 2022 at 10:45 AM kodragonP ***@***.***> wrote: Hi, I called the SNPs of one genome from a metagenome. The pi value of the genome was given in the intradiv.txt file, but I can not find the pi of each contig. Is there any way to show this data? Thank you for your software, it is very easy to use. — Reply to this email directly, view it on GitHub <#11>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AAOWSP7QHFOEYTZROL2BP6LVN4D2BANCNFSM5YCDCAOQ> . You are receiving this because you are subscribed to this thread.Message ID: ***@***.***>

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[kodragonP]

The average pi values of all locus should be normalized by contig length?