geographic structure

Gao H, Williamson S & Bustamante CD 2007 Markov chain Monte Carlo approach for joint inference of population structure and inbreeding rates from multilocus genotype data. Genetics 176:1635-1651.

• we extend the popular Bayesian clustering approach STRUCTURE
• for simultaneous inference of inbreeding or selfing rates and population-of-origin classification using multilocus genetic markers
• this is accomplished by eliminating the assumption of Hardy-Weinberg equilibrium within clusters
• instead, calculating expected genotype frequencies on the basis of inbreeding or selfing rates
• we demonstrate the need for such an extension by showing that selfing leads to spurious signals of population substructure using the standard STRUCTURE algorithm
• with a bias toward spurious signals of admixture