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saimoom / phyml

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Incorporate invariant sites estimation with edgelikelihood calculation #7

Open GoogleCodeExporter opened 9 years ago

GoogleCodeExporter commented 9 years ago 
Currently, the proportion of invariant sites is not considered while computing 
edge likelihoods. 
We can instead create an extra "dummy" rate category with weight p (whereas the 
original N category weights are now (1-p)/N). In other words, likelihoods for 
the dummy category are still computed for all sites.

Original issue reported on code.google.com by imran.fa...@gmail.com on 18 Sep 2013 at 3:22