This page contains links to software, papers, notes, data sets, and other materials used in a graduate seminar in statistical phylogeography at the University of Connecticut held during Spring Semester 2011.
Meetings Tuesday at 4:00pm (except where noted below in magenta type) in the Bamford Room, TLS 171B
You'll find the papers referred to in the Mendeley bibliography
|Jan 18||Snow day|
|Jan 25||Overview; Introduction to Structure & Structurama|
Papers to read: Pritchard et al. (2000), Evanno et al. (2005), Hulsenbeck & Andolfatto (2007)
|Feb 1||Snow day|
|Feb 8||Structure, Structurama, Clumpp, & distruct|
Papers to read: Jakobsson & Rosenberg (2007)
|Feb 15 (2:30pm)||BayesAss+||Golden|
|March 8||Spring break|
|March 15 (2:30pm)||Migrate-N (and LAMARC)||Holsinger|
|March 22||IMa2 ||Wade|
|March 29||∂a∂i -- diffusion approximation for demographic inference||Holsinger|
|April 5||Approximate Bayesian Computation: DIYABC, PopABC||Chen|
|April 12||ABC -- the debate|
Papers to read (listed in the order of appearance): Nielsen & Beaumont (2009), Templeton (2010a), Beaumont et al. (2010)
|April 19 (2:30pm)||BEAST -- Bayesian skyline plots||Batta Lona|
Paper to read: Lemmon & Lemmon (2008)
|May 3||Estimating species trees from gene trees: STEM, SpedeSTEM, BEST, and StarBEAST|
Papers to read: Kubatko et al. (2009), Carstens & Dewey (2010), Edwards et al. (2007), Liu (2008), Heled & Drummond (2010)
These programs are for allelic data, e.g., microsatellites or AFLPs.
Bibliography on Mendeley.
Note: The bibliography is publicly accessible, but only those whom I invite will be able to add to it. Click the "Ask to join group" button if you're interested.
Free desktop (Windoze, Mac OS X, and Linux) and iPad clients for Mendeley are available. They sync with bibliographies on the web. You may find it useful to get one of these clients, since the web bibliography doesn't sort references by author (or at least I haven't figured out how to get it to sort them by author yet).