artpoon/slides

slides's Issues

Refresh MBI4750 lecture slides

1. intro, pathogen discovery
2. genetic distances, clustering for nomenclature
3. clustering for epidemiology
4. clustering for tree building (neighbor-joining)
5. substitution models (Markov chains)
6. maximum likelihood, ML trees
7. dN/dS
8. model selection, likelihood ratio test, AIC
9. rooting trees
10. molecular clocks, root-to-tip regression
11. Bayesian inference
12. MCMC
13. Coalescent (after reading week)
14. Demographic models. Skylines
15. BEAST.
16. Modeling epidemics. Comparmental models.
17. Birth-death models.
18. Birth-death models (part 2)
19. Guest lecture (Abayomi)
20. Phylogeography (Devin)
21. Ethics of data sharing (privacy, open access)
22. Ethics of sharing tools (open source)
23. Guest lecture (Roux-Cil)
24. Guest lecture (Jeff)

slides intermittently disappearing

• a known issue with reveal.js, upgrading to version 4.2.1 is supposed to resolve this but is causing other problems
• have to migrate HTML documents to work with newer version

reveal.js 4.2.1 causing multiple slides to render on page load

how do you decide the cut-off value for transmission cluster?