phytools (version 2.4-4)

make.era.map: Create "era" map on a phylogenetic tree

Description

Creates a temporal map on the tree based on limits provided by the user.

Usage

make.era.map(tree, limits, ...)

Value

An object of class "simmap" with the specified eras mapped as different regimes.

Arguments

tree

an object of class "phylo".

limits

a vector containing the temporal limits, in time since the root node of the tree, for the mappings. The first number should be 0, and each subsequent number should be the start of each subsequent regime or era to be mapped on the tree.

...

optional arguments.

Author

Liam Revell

References

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

See Also

make.simmap, read.simmap, plotSimmap

Examples

## simulate tree with total depth of 100
tree<-pbtree(n=1000,scale=100)

## subdivide into mapped eras
tree<-make.era.map(tree,c(0,25,50,75))

## create graph of mapped tree
plot(tree,ftype="off",lwd=1)

## reset margins to default
par(mar=c(5.1,4.1,4.1,2.1))