User:Carl Boettiger/Notebook/Comparative Phylogenetics/2010/07/01

Comparative Phylogenetics

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Multitype OU Processes with varying alpha and sigma Been meaning to sit down and work this one out for a while; somehow travel and conferences helped out with that -- now I only have to transcribe some dozen messy hotel notepad sheets to get the calculations into this lab notebook. Meanwhile, 15 hours on a train from Portland was just the right amount of time to code up the approach, which is now implemented at the C level for the Anoles dataset; code in the wrightscape project on github. current algorithm will replace the existing codebase for the wrightscape project. Currently the makefile, p_multimin.c, and piecewise_regimes.c (the main file) contain the standalone version of the new method. Will soon remove older scripts from the active version and break up piecewise_regimes.c into multiple files as appropriate.