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Greetings - for testing the likelihood of a constrained tree compared to a reference (IQ-TREE Advanced Tutorial section "Tree topology tests"), is there a way to specify a complex model with -m ? The current example in the manual is something like "iqtree -s example.phy -z example.treels -m GTR+G". I am currently using a reference tree that was made with a complex model, and I was wondering if it was possible/meaningful to use a C60 model for this step.
Also, could you clarify the effect of using multiple iterations with the -n flag for this step? I am hoping to increase the sensitivity of my topology comparisons, so any tips you have for tweaking the parameters here would be welcome.
Thank you,
The text was updated successfully, but these errors were encountered:
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Greetings - for testing the likelihood of a constrained tree compared to a reference (IQ-TREE Advanced Tutorial section "Tree topology tests"), is there a way to specify a complex model with -m ? The current example in the manual is something like "iqtree -s example.phy -z example.treels -m GTR+G". I am currently using a reference tree that was made with a complex model, and I was wondering if it was possible/meaningful to use a C60 model for this step.
Also, could you clarify the effect of using multiple iterations with the -n flag for this step? I am hoping to increase the sensitivity of my topology comparisons, so any tips you have for tweaking the parameters here would be welcome.
Thank you,
The text was updated successfully, but these errors were encountered: