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phytools (version 2.3-0)

reorderSimmap: Reorder edges of a "simmap" tree

Description

Function returns a reordered modified "phylo" object by using reorder.phylo but then sorting the additional elements $mapped.edge and $maps to have the same order as $edge.

Usage

reorderSimmap(tree, order="cladewise", index.only=FALSE, ...)

Value

A modified object of class "phylo".

Arguments

tree

a modified object of class "phylo".

order

"cladewise", "pruningwise", or any other allowable order permitted by reorder.phylo.

index.only

logical value indicating whether only an index should be returned.

...

other arguments.

Author

Liam Revell liam.revell@umb.edu

References

Revell, L. J. (2024) phytools 2.0: an updated R ecosystem for phylogenetic comparative methods (and other things). PeerJ, 12, e16505.

See Also

reorder.phylo, plotSimmap