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How do I compare models with +I and +G? (Read 4042 times)

Rob YaBB Newbies Offline Feed your monkey! Posts: 4	How do I compare models with +I and +G? Dec 21^st, 2010 at 11:37pm Hi All, I am new to HyPhy batch language. I was wondering if there's a simple way to edit nucmodelcompare.bf, in order to compare not only the 203 GTR submodels, but the full 812 submodels of GTR+I+G (i.e. each of the 203 models, with all combinations of +I and +G)? Thanks Rob
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Sergei

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Re: How do I compare models with +I and +G?
Reply #1 - Dec 22^nd, 2010 at 2:06pm

Hi Rob,

nucmodelcompare.bf is a bit of a beast, so I would not recommend trying to modify it directly.
If you are simply after the single best model, I would suggest that you test for +G, +I, +I+G FOLLOWING the model selection (among the 203). For that you can write a simple wrapper file to AnalyzeNucData.bf with custom model (6-characters) and differing rate variation options i.e. something along the lines of the attached file.

Sergei

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