mpl_apply_tipdata

Once the caller is satisfied with the setup of types, weights,
and partitioning, this function must be called, thereby committing the
parameters until any changes are made. If no character types have been
assigned, the function will fail with an error code.

internal

Reconstruct phylogenetic trees from discrete data.
Inapplicable character states are handled using the algorithm of Brazeau,
Guillerme and Smith (2019) <doi:10.1093/sysbio/syy083> with the "Morphy"
library, under equal or implied step weights.
Contains a "shiny" user interface for interactive tree search and exploration
of results, including character visualization, rogue taxon detection,
tree space mapping, and cluster consensus trees (Smith 2022a, b)
<doi:10.1093/sysbio/syab099>, <doi:10.1093/sysbio/syab100>.
Profile Parsimony (Faith and Trueman, 2001) <doi:10.1080/10635150118627>,
Successive Approximations (Farris, 1969) <doi:10.2307/2412182>
and custom optimality criteria are implemented.

Martin R. Smith

TreeSearch

Phylogenetic Analysis with Discrete Character Data

Martin Brazeau

mpl_apply_tipdata function

<dl><dt>morphyobj</dt>
<dd>An instance of the Morphy object.</dd></dl>

Arguments

Author

Commits parameters prior to nodal set calculations. — mpl_apply_tipdata

<dl>

<dt>morphyobj</dt>
<dd>An instance of the Morphy object.</dd>

</dl>

mpl_apply_tipdata: Commits parameters prior to nodal set calculations.

Description

Usage

Value

Arguments

Author

See Also