Identify most and least abundant allele (nMAJ and nMIN) for pooled heterozygosity (hp) analysis from vcf file

Identify most and least abundant allele (nMAJ and nMIN) for pooled heterozygosity (hp) analysis from vcf file

1

I am trying to calculate Pooled Heterozygosity (hp) by identifying nMAJ and nMIN from vcf file with a sliding window 150kb. I am confused after reading papers where they calculated using formula but no particular method to calculate nMAJ and nMIN. Can you please share the way to calculate the same. I will be grateful to you all.

Hp = 2ΣnMAJΣnMIN/(ΣnMAJ + ΣnMIN)2

Thankyou


selection


wgs


vcf


gatk

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