I’ve finally had time to clean and post the final version of lecture notes from my graduate course in population genetics last spring. The individual lectures have been since I revised them for class, meaning that the last set of them was available in late April. You will find links to the individual lecture notes at http://darwin.eeb.uconn.edu/uncommon-ground/eeb348/notes/. If you’re interested in a particular topic in population genetics and I have a lecture that covers the topic, that’s probably where you’ll want to go.
If you want a single-volume reference to population genetics (including some old notes that I no longer maintain), you’ll find a PDF (5.89MB, 322 pages) at Figshare (doi: 10.6084/m9.figshare.100687.v2). If you want to print the PDF, I recommend that you print it on a double-sided printer. You can then put the pages in a binder and flip through them as if it were a bound book.
If you use LaTeX (and you’re a glutton for punishment), the LaTeX source and EPS files (for figures) is available in a Github repository (https://kholsinger.github.io/Lecture-Notes-in-Population-Genetics/).
These notes are released under a Creative Commons Attribution-ShareAlike license (http://creativecommons.org/licenses/by-sa/4.0/). I hope you find them useful. If you find errors in them, please let me know.