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Modelling sequence evolution
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``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".
.. toctree::
:maxdepth: 1
evo-model
evo-model-with-tree
evo-model-timehet
evo-extract-model-stats
evo-ancestral-states
evo-dt-nuc-model
evo-tr-nuc-model
evo-nstat-codon-model
evo-tr-codon-model
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