sim_tree_pd_grid: simulation function to simulate a tree under the pd model

In franciscorichter/emphasis: Evolutionary Modeling on Phylogenetic Applications with Simulations and Importance Sampling

simulation function to simulate a tree under the pd model

Description

super fast function to simulate the process of diversification with diversity dependence and phylogenetic diversity dependence

Usage

sim_tree_pd_grid(mu_vec, lambda_vec, b_n_vec, b_p_vec, max_t, num_repl, max_N)

Arguments

mu_vec	vector of extinction rates to explore
lambda_vec	vector of lambda rates to explore
b_n_vec	vector of B_n rates to explore
b_p_vec	vector of B_p rates to explore
max_t	crown age
num_repl	number of replicates
max_N	maximum number of lineages past which non-extinction is assumed.

Value

a list with the used parameter combinations, extinction of the phylogeny, and a vector with population size, time of extinction (equal to the crown #' age in the absence of extinction), and the phylogenetic diversity at the time of extinction (or crown age).

franciscorichter/emphasis documentation built on Feb. 19, 2024, 7:36 p.m.