Course Coverage
 
Material Covered:
Detailed syllabi are not yet assembled, but in addition to the general topics outlined in the syllabus, students can expect to cover the following:
 
Computational:
  1. •     Scripting analysis pipelines, stringing programs together, and creating batch scripts
  2. •     Parallelization of analyses over computer clusters
  3. •     Building and querying phylogenetic databases
  4. •     Designing web interfaces to programs and widgets
  5. •     Parsing and writing nexus files; navigating, simulating, traversing, and drawing trees
  6. •     Searching tree topologies in databases
  7. •     Collaborative morphological character management
  8. •     Genbank retrieval, data assembly,  alignment, automating base calling
 
Biological:
  1. •     Ancestral state reconstruction and optimization; continuous character reconstruction
  2. •     Non-parametric and parametric bootstrapping
  3. •     Automating model selection
  4. •     Molecular clock and evolutionary rate tests; relative rate and ratio tests
  5. •     Detecting recombination, positive selection, population structure