divlocus function

Diversity score

Compute a measure of genetic diversity at each locus

divlocus(dat)

Arguments

• dat: A binary matrix, rows are haplotypes and columns are binary markers

Details

This function implements a measure of diversity for a locus $j$

as in Clayton (2002). If $z_ij$ represents the allele $j$ of haplotype $i$, for $i=1,...,N$ and assuming that alleles are coded as 0 and 1, the diversity measure can be written as

Returns

A vector containing the diversity measure for all markers

References

D. Clayton. Choosing a set of haplotype tagging SNPs from a larger set of diallelic loci. 2002. www-gene.cimr.cam.ac.uk/clayton/software/stata/htSNP/htsnp.pdf

Author(s)

Giovanni Montana

Examples

data(ACEdata)
divlocus(ACEdata)