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Fis, Ho and He calculation from Whole Genome Seq data

Dears all,

I have a vcf file generated from WGS data which is included by 4 different groups. So I am interested to obtain the mean values of Fis and Heterozygosity per each group/population. The vcftools gives those parameters for each site but what I want is the mean value for each group indeed.

Any command or help is appreciated in advance.

Regards, Omid

snp r genome
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written by jaafari.omid jaafari.omid

Hi, were you able to figure it out?

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written by rthapa • rthapa

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