sim.tree: Phylogenetic tree simulation

In franciscorichter/dmea02: Diversification and Macro-Evolution Analysis

Description

Phylogenetic tree simulation, given the model and parameters.

Usage

sim_phyl(ct=15, lambda0=0.8, mu0=0.1, K=40, model="dd",printEv=FALSE,seed=FALSE)

Arguments

ct	Crown time
lambda0,mu0	Speciation and extinction rates parameter (they depends on the model)
K	Carring capacity (For diversity-dependance model only)
Model	Diversification rates model. The available models are 'dd' for diversity dependance and 'cr' for constant rate model
PrintEv	Prints the events while occurring in the tree
seed	Seed for the simulation.

Value

tree	A list containing 4 elements: wt are the waiting times of the tree, E is the binary vector representing speciations or extinctions, n is the number of species at each node of the tree and br are the branching times of the nodes.
phylo	is the phylo object corresponding to the tree
tree.extant	Same as tree, but removing extinct species
extant.phylo	phylo of the extant-species tree

Author(s)

F. Richter M.

References

[1] Generalizing species diversification models: Technical report

Examples

st <- sim.tree()
plot(st$phylo)

franciscorichter/dmea02 documentation built on March 21, 2020, 3:46 a.m.