Monday, October 3, 2011

New paper on ABC comparative method

A new paper by Graham Slater and colleagues has just come out "Online Accepted" in Evolution. A direct link to the paper is here. In this article, the authors present a new method in which Approximate Bayesian Computation is used to simultaneously estimate diversification rates & rates of phenotypic evolution in an incompletely sampled tree. Incidentally, I am a (minor) co-author on this article (my contribution was to write some computer code in C that was used in early versions of the software). Check it out.

4 comments:

  1. Thanks for posting this, Liam! And FYI, MECCA 1.0 is now available in package form at my website http://www.eeb.ucla.edu/gradstudents/slater/Graham/code.html


    Graham

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  2. Hi Graham. Very cool. Will this eventually be incorporated into the "geiger" library?

    P.S. You can embed links by using html tags, even in comments: e.g., link to MECCA is here.

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  3. P.P.S. For the uninitiated, ABC has a wikipedia page, here.

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  4. Thanks Liam. I guess I need to improve my commenting skills...

    Yes, MECCA will ultimately find its way into geiger 2.0. The current release can implement a simple BM model, a two-rate model or BM with a trend (note that a strong root prior, such as might come from fossil information, is required for this model to work). The geiger version will implement OU and ACDC too. Any user suggestions/demands are also welcome.

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