List of Slides

Title Page- Phylogenetics Resources Introduction to Phylogenetics Introduction to Phylogenetics Phylogenetic Data Types Why Study Molecular Phylogenetics? Examples in Epidemiology Examples in Conservation Biology Examples in Pharmaceutical Research Examples in Forensic Science Phylogenetics Module Objectives Table of Contents Tree Facts: Terminology Tree Facts: Scaled versus Unscaled Trees Tree Facts: Rooted versus Unrooted Trees Tree Facts: Species versus Gene Trees Molecular Evolution Tips Methods of Analysis Distance Methods Distance Methods (continued) Distance Methods (continued) Parsimony Methods Maximum Likelihood Bayesian Approaches Reliability Tests Reliability Tests (continued) Data Set Organization MEGA (Molecular Evolutionary Genetics Analysis) MEGA Help Downloading MEGA MEGA Sample Data Set MEGA Sample Data Set (continued) Accessing Data Sets in MEGA Data Viewing Options Other Options More Options Building a Distance Matrix in MEGA Building a Distance Matrix in MEGA (continued) Building Distance Trees in MEGA Running a Bootstrap Test in MEGA PHYLIP Downloading PHYLIP Building a Parsimony Tree in PHYLIP Building a Parsimony Tree in PHYLIP (continued) Building Maximum Likelihood Trees with PHYLIP PAUP* MrBayes MacClade Links to Other Phylogenetics Programs and Packages PopSet PopSet Sequence Records Viewing Sequences Aligning Data in PopSet User Question 1 - Build Trees with PHYLIP User Question 2 - Build Trees with MEGA User Question 3 - Take Home Question - Re-analyze Published Data General Resources Useful Books and Book Chapters Bibliography List of Slides