CmdID

CmdID / Commands

treetime

Provide routines for ancestral sequence reconstruction and inference of molecular-clock phylogenies. tldr-pages

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Infer ancestral sequences maximizing the joint or marginal likelihood

treetime ancestralIdentify

Analyze patterns of recurrent mutations aka homoplasies

treetime homoplasyIdentify

Estimate molecular clock parameters and reroot the tree

treetime clockIdentify

Map discrete character such as host or country to the tree

treetime mugrationIdentify