Introduction to Graphical Models in RevBayes (Week 9)

Topics

Höhna S, et al. 2014. Probabilistic graphical model representation in phylogenetics. 63:753-771. [REQUIRED]
Höhna S, et al. 2016. RevBayes: Bayesian phylogenetic inference using graphical models and an interactive model-specification language. 65:726-736. [REQUIRED]
Jordan MI. 2004. Graphical models. Statistical Science. 19:140-155. [OPTIONAL]

Write out your own graphical model on paper for the Normal model
Take a picture of your graphical model
Now, write out the Rev code to specify this model
Set up an MCMC analysis for this model using the built-in MCMC machinery in RevBayes
Save your commands in a text file that can be run from the command line
Run your analysis
Open your log file in Tracer and examine the results. Do you feel confident in your estimates?
Set up a new analysis for the Normal, but with more informative priors
Rerun your analysis
Examine your logs again in Tracer. How have things changed?
Save your (1) graphical model image, (2) analysis files, (3) log files, and (4) descriptions of your results in a folder with your name. Add this folder to the homework folder. Submit a pull request to the class page with your files.

Name		Name	Last commit message	Last commit date
Latest commit History 52 Commits
homework		homework
IntroGraphicalModels.pdf		IntroGraphicalModels.pdf
IntroToGraphicalModels.ipynb		IntroToGraphicalModels.ipynb
MCMC_MetropolisCoupling.pdf		MCMC_MetropolisCoupling.pdf
README.md		README.md
binomial.rev		binomial.rev