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treetime

List of commands for treetime:

  • treetime:tldr:1c07f treetime: Analyze patterns of recurrent mutations aka homoplasies.
    $ treetime homoplasy
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  • treetime:tldr:2a461 treetime: Estimate molecular clock parameters and reroot the tree.
    $ treetime clock
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  • treetime:tldr:39f8f treetime: Map discrete character such as host or country to the tree.
    $ treetime mugration
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  • treetime:tldr:a805a treetime: Infer ancestral sequences maximizing the joint or marginal likelihood.
    $ treetime ancestral
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