If you'd like to print a copy of any of these notes, I suggest printing the PDF version, which you can download by clicking on the icon. The "Lecture notes in population genetics" link is to a PDF compilation of all of these notes, including a table of contents and an index. I suggest waiting until the end of the semester to download this PDF, because it's contents will be revised as I revise and update then notes listed below.

You should also be aware that my automated HTML conversion from LaTeX sometimes doesn't work quite right. Figures may be missing, and symbols may end up in the wrong place. If something doesn't look right, take a look at the PDF to see if it's simply a problem with the HTML rendering. If it still doesn't look right, it's entirely possible that there's an error. If you find one, please let me know.

You will also find links to the notes associated with a particular lecture on the detail page associated with that lecture.

Lecture notes in population genetics

• The genetic structure of populations
  • Genetic transmission in populations
  • The Hardy-Weinberg principle and estimating allele frequencies in populations
  • Inbreeding and self-fertilization
  • Testing for departures from Hardy-Weinberg proportions
  • The Wahlund Effect and Wright's F-statistics
  • Analyzing the genetic structure of populations: Nei's Gst, Weir & Cockerham's
  • Supplementary notes on GDA
  • The genetic structure of populations: Bayesian F-statistics
  • The genetic structure of populations: individual assignment
  • Two-locus population genetics
• The genetics of natural selection
  • The genetics of natual selection
  • Estimating viability
  • Selection at one locus with many alleles, fertility selection, and sexual selection
  • Selection components analysis
• Genetic drift
  • Genetic drift
  • Mutation, migration, and genetic drift
  • Selection and genetic drift
  • The coalescent
• Quantitative genetics
  • Introduction to quantitative genetics
  • Resemblance among relatives
  • Partitioning variance with WinBUGS
  • Evolution of quantitative traits
  • Simultaneous evolution of several quantitative traits
  • Mapping quantitative trait loci
  • Mapping quantitative trait loci with QTL Cartographer
• Molecular evolution
  • Introduction to molecular population genetics
  • The neutral theory of molecular evolution
  • Patterns of nucleotide and amino acid substitution
  • Detecting selection on nucleotide polymorphisms
  • Patterns of selection on nucleotide polymorphisms
  • Tajima's D, Fay and Wu's H, and Zeng et al.'s E
  • Evolution in multigene families
• Phylogeography
• Analysis of molecular variance (AMOVA)
• Nested clade analysis
• Statistical phylogeography
• Fully coalescent-based approaches to phylogeography
• Approximate Bayesian computation

Links to WinBUGS problems and notes

Many of the problem assignments in the course use WinBugs. A few of the lectures deal specifically with the use of WinBugs to solve problems in population genetics. To make it easy to find both sets of notes, I've listed them here.

• The Hardy-Weinberg principle and estimating allele frequencies in populations
  (The WinBUGS section starts on p. 8.)
• Analyzing mother-offspring combinations at microsatellite loci
  • Problem statement
  • Solution
• Estimating rates of self-fertilization in hermaphroditic plants
  • Problem statement
  • Solution
• Estimating viability
  • Problem statment
  • Solution
• Estimating effective population size (Note: the solution provided isn't quite correct. It uses the mean allele in the offspring population instead of the mean in the parental population, and it ignores the sampling variance of within-population allele frequencies.)
  • Problem statement
  • Solution
• Testing Hardy-Weinberg
  (The WinBUGS section starts on p. 3)
• Partitioning variance with WinBUGS
  • Problem statement
  • Solution