R: Expected heterozygosity (Hs)

Hs {adegenet} | R Documentation

## Expected heterozygosity (Hs)

### Description

This function computes the expected heterozygosity (Hs) within populations of a genpop object. This function is available for codominant markers (`@type="codom"`) only. Hs is commonly used for measuring within population genetic diversity (and as such, it still has sense when computed from haploid data).

### Usage

    Hs(x, pop = NULL)

### Arguments

`x` | a genind or genpop object.
`pop` | only used if x is a genind; an optional factor to be used as population; if not provided, pop(x) is used.

### Details

Let m(k) be the number of alleles of locus k, with a total of K loci. We note f_i the allele frequency of allele i in a given population. Then, Hs is given for a given population by:

\frac{1}{K} ∑_{k=1}^K (1 - ∑_{i=1}^{m(k)} f_i^2)

### Value

a vector of Hs values (one value per population)

### Author(s)

Thibaut Jombart t.jombart@imperial.ac.uk

### See Also

`Hs.test` to test differences in Hs between two groups

### Examples

    ## Not run:
    data(nancycats)
    Hs(genind2genpop(nancycats))

    ## End(Not run)

[Package adegenet version 2.1.4 Index]