I just finished updating the Resources page for EEB 5348. It includes links to the software we’ll be using during the course. To the extent possible, we’ll do everything in R, JAGS, and Structure, all of which are available for any computer you’re likely to be using (Linux, Mac OS X, or Windows), but we may have to use something else when we get to GWAS.
If you have time and the inclination before classes start, please download and install R and spend some time playing around with it. Unless you are really ambitious, though, I wouldn’t bother with JAGS or Structure yet. Both of them are fairly arcane (but extremely powerful), and I hope you’ll find it easier to use and understand them if we work through them together.