Best Model
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4 months ago

Good morning? I would like to run MrBayes anaysis using amino acids sequence, I generated the best fit model using IqTree and the model according to BIC is JTT+I+G4; and another is BIC=LG+F+G4 what I dont know is the equivalent of these two models in MB; Lastly, will it be correct to use G instead of G4 If anyone knows the answer I will be more than happy

Thanks

molecular phylogeny • 268 views
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Entering edit mode
4 months ago
Mensur Dlakic ★ 19k

For JTT:

lset rates=invgamma ngammacat=4; [this is I+G4]
prset aamodelpr=fixed(jones); [this is JTT]

For LG:

lset rates=gamma ngammacat=4; [this is G4]
prset aamodelpr=fixed(lg) statefreqpr=fixed(empirical);  [this is LG+F]
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