locusIBS {relSim}

Identity by state at a locus

Description

Calculates the number of alleles that are shared by two profiles at a single locus. If the two profiles in question are indeed relatives then the matching alleles may be identical by descent, or by random chance alone, hence identity by state.

Usage

locusIBS(profMat)

Arguments

profMat

A matrix consisting of 4 columns and N rows. Each row in the matrix consists of the genotypes of two individuals.

Value

A vector of length N containing values 0, 1, or 2 depending on how many alleles each pair of profiles share at a locus.

Author(s)

James M. Curran

Examples

data(fbiCaucs)
G = randomSample(1, fbiCaucs, rel = 'FS', N = 1000)
ibs = locusIBS(G)
barplot(tabulate(ibs+1, nbins = 3))