hierfstat: pi.dosage – R documentation

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pi.dosage

Estimates nucleotide diversity (π) from dosage data

Description

Estimates nucleotide diversity π= ∑_l 2 p_ l(1-p_l) 2n/(2n-1) from a dosage matrix

Usage

pi.dosage(dos,L=NULL)

Arguments

`dos`	a ni X nl dosage matrix containing the number of derived/alternate alleles each individual carries at each SNP
`L`	the length of the sequence

Value

if L=NULL (default), returns the sum over SNPs of nucleotide diversity; otherwise return the average nucleotide diversity per nucleotide given the length L of the sequence

hierfstat

Estimation and Tests of Hierarchical F-Statistics

v0.5-10

GPL (>= 2)

Authors

Jerome Goudet [aut, cre], Thibaut Jombart [aut], Zhian N. Kamvar [ctb], Eric Archer [ctb], Olivier Hardy [ctb]

Initial release

2021-11-16