User:Carl Boettiger/Notebook/Comparative Phylogenetics/2010/03/14

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 * style="background-color: #EEE"|[[Image:owwnotebook_icon.png|128px]] Comparative Phylogenetics
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 * style="background-color: #F2F2F2" align="center"|  |Main project page


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Post-Workshop
Working on a couple new ideas:
 * Multiple partitions
 * Community phylogenetics nulls
 * Diversification rates w/ stationary distributions

Tools exploration

 * Finding my forum a very useful tool for recording and organizing around idea. Nice complement to this notebook which helps me organize temporally instead.
 * Becoming convinced I should transition from svn to git. Created a git-hub account and have started learning the basic git commands.  The Git community book and the website video tutorials have been very helpful.


 * Meanwhile, RabbitVCS is a very slick SVN manager integrated directly into the Nautilus browser. I've also added the svn commands to hotkeys through my vimrc script.


 * listened to an interesting talk by Willbanks on science commons and ''Generative Science'.'

Research
Working on the multiple partitions question for discretization of continuous data.
 * Maximum likelihood implementation in R for an arbitrary but fixed number of peaks.
 * Writing the MCMC approach now to allow Bayesian partitioning.
 * Will be a good test case for the reversible jump process
 * Potentially a good test case to explore Dirchlet Process Prior

Project now has a code repository

 * Hosting through github.
 * Several advantages to the git system -- no central repository, easier branching / merging, faster.
 * github interface also seems to have several advantages relative to google code. In addition to supporting git, provides a more intuitive and visually appealing layout for the project.


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