IM & IMa README FILE
By Andrew Gottscho (agott002@ucr.edu)
Created April 30, 2014

This folder contains a variety of input and output files from IM (Hey & Nielsen 2004; Hey 2005) and IMa analyses (Hey & Nielsen 2007) as described in our manuscript (Gottscho et al. 2014). We ranked nested demographic models under the AIC using a modified spreadsheet provided by B. Carstens (Carstens et al. 2009,2010).

References:

Carstens BC, Reid N, Stoute HN (2009) An information theoretical approach to phylogeography. Molecular Ecology, 18, 4270–4282.

Carstens BC, Reid N, Stoute HN (2010) Corrigendum. Molecular Ecology, 19, 620.

Gottscho AD, Marks S, Jennings WB (2014) Speciation, population structure, and demographic history of the Mojave Fringe-toed Lizard (Uma scoparia), a species of conservation concern. Ecology and Evolution, in press.

Hey J (2005) On the number of New World founders: A population genetic portrait of the peopling of the Americas. PLoS Biology, 3, 965–975.

Hey J, Nielsen R (2004) Multilocus methods for estimating population sizes, migration rates and divergence time, with applications to the divergence of Drosophila pseudoobscura and D. persimilis. Genetics, 167, 747–760.

Hey J, Nielsen R (2007) Integration within the Felsenstein equation for improved Markov chain Monte Carlo methods in population genetics. PNAS, 104, 2785–2790.

Link:

https://bio.cst.temple.edu/~hey/software/software.htm#IM