John Huelsenbeck

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Revision as of 18:05, 26 July 2012 by Jsukumaran (talk | contribs)

Slides/Presentations:

   - Bayesian Phylogenetic Analysis, I
   - Bayesian Phylogenetic Analysis, II
   - Bayesian Phylogenetic Analysis, Supp.

Lab Files:

   - wiki page
   - Media:WoodsHole2012_tutorial.zip
   - Media:MrBayes_tutorial_instructions.zip


John's lab page: http://ib.berkeley.edu/people/lab_detail.php?lab=54

Files Generated during the lecture/lab:

  • simwithdice.nex - a NEXUS file with the data patterns that the class generated using 10-sided dice.
  • coin_flip_mcmc.py - a Python program that implements the MCMC for estimating a coin's bias based on a number of heads and tails observed. This is not the code written during the lecture by John. It is an equivalent version of John's C++ implementation written (by Mark Holder) using the Python programming language. If you download it, then you can run it (from a Terminal) with the command python coin_flip_mcmc.py