Lea (likelihood‐based estimation of admixture): a program to estimate simultaneously admixture and time since the admixture event

Abstract

AbstractWe consider an admixture event, T generations in the past, where two ‘parental’ populations, P1 and P2, of size N1 and N2, contribute different proportions into the gene pool of an admixed population, H of size Nh. lea (likelihood‐based estimator of admixture) is a program which allows the user to obtain the posterior distribution of the parameters of the model. This includes p1, the contribution of P1, and t1, t2 and th, the time since the admixture event (scaled by the population size) for the three populations. lea allows the user to stop and restart the analyses at any time.