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+# treetime
+
+> TreeTime provides routines for ancestral sequence reconstruction and inference of molecular-clock phylogenies.
+> More information: <https://treetime.readthedocs.io/en/latest/tutorials.html>.
+
+- Infer ancestral sequences maximizing the joint or marginal likelihood:
+
+`treetime ancestral`
+
+- Analyze patterns of recurrent mutations aka homoplasies:
+
+`treetime homoplasy`
+
+- Estimate molecular clock parameters and reroot the tree:
+
+`treetime clock`
+
+- Map discrete character such as host or country to the tree:
+
+`treetime mugration`