Bayesian Population Genetic Data Analysis

The notes and files provided here were used in Bayesian parts of the Population Genetic Data Analysis module in the Summer Institute in Statistical Genetics at North Carolina State University, 28-30 May 2003.

A paper providing evidence that athletes use Bayesian learning (instinctively) in experiments designed to simulate tennis appeared in the 15 January 2004 issue of Nature.

Copyright notice: You'll find a copyright notice on the first page of the notes. That notice is not intended to discourage duplication. In fact, I encourage it, provided you do not charge for any copies you make beyond reasonable costs of duplication. I haven't included a similar copyright notice in the WinBUGS code. I do ask, however, that you not cite either these notes or the WinBUGS code in any publications without prior permission.

Kent Holsinger


Notes

Adobe PDF version

LaTeX source


Examples

Binomial sampling

Inbreeding at one locus with two alleles

Inbreeding with partial dominance (SMFO)

Estimating gametic disequilibrium

Population structure analysis


Software used or mentioned during the module

WinBUGS

Hickory

R -- 'GNU S', a freely available language and environment for statistical computing and graphics

BOA -- Bayesian Output analysis, routines for convergence diagnostics in R and S-Plus


Earlier versions of the notes

If for some reason you are interested in versions of the notes from earlier years, they are also available here.