Current Version is 3.1.2

Improved marginal likelihood calculations and also allows combination of populations.



MIGRATE-N

estimation of population sizes

and gene flow using the coalescent

Migrate estimates effective population sizes and past migration rates between n population assuming a migration matrix model with asymmetric migration rates and different subpopulation sizes. Migrate uses maximum likelihood or Bayesian inference to jointly estimate all parameters. The analysis can be constrained to subsets of migration patterns, such as setting some migration rates between populations to zero or constrain to symmetric rates or average over all migration rates, or use likelihood ratio tests and AIC values to compare different hypotheses. Migrate can use several different single or multilocus data types: sequence data using Felsenstein's 84 model with or without site rate variation, single nucleotide polymorphism data, microsatellite data using a stepwise mutation model or a brownian motion mutation model, and electrophoretic data using an 'k+1' allele model. The output comes in two flavors: PDF and TEXT file. The file can contain: Maximum likelihood: Estimates of all migration rates and all population sizes, assuming constant mutation rates among loci or a gamma distributed mutation rate among loci. Profile likelihood tables, Percentiles, Likelihood-ratio tests, and simple plots of the log-likelihood surfaces for all populations and all loci. (not all plots are implemented in the PDF, yet). Genealogy with best likelihood (Printable through ET (eventtree -- http://popgen.scs.fsu.edu/Eventtree.html) or after some editing in Figtree (Andrew Rambaut). Bayesian inference: Estimates of maximum posterior values of parameters and credibility intervals in table form, figures of posterior distribution of parameters. Indications of convergence and effective sample size, presentation of frequency of migration events over time, genealogy with best likelihood printable through ET, calculation of marginal likelihood that can be used to compare different models.Eventtree.htmlEventtree.htmlhttp://popgen.scs.fsu.edu/migabout.htmlshapeimage_2_link_0shapeimage_2_link_1

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