Modelling sequence evolution#

cogent3 possesses unique capabilities for molecular evolutionary analyses. Of particular significance are our non-stationary model classes and the associated measurement of genetic distance from these. That said, we also implement most of the conventional substitution models. See cogent3.available_models() for a display of the built-in models.

You can use these models either through the general model app, or some task specific apps. Both are described in the following “how-tos”.