sim_initialize_data_new_clade: Initialize data for a new clade

In Giappo/sls: Likelihood model for diversification processes with single lineage rate shifts

Description

sls_sim module

Usage

sim_initialize_data_new_clade(
  data,
  clade,
  pars,
  l_2 = sls::sim_get_standard_l_2(),
  l_matrix_size = 10000
)

Arguments

data	contains all the information about the simulated process
clade	the id of the clade
pars	parameters of the likelihood functions: pars[1] is lambda_m, i.e. speciation rate of the main clade; pars[2] is mu_m, i.e. extinction rate of the main clade; pars[3] is lambda_s, i.e. speciation rate of the sub clade; pars[4] is mu_s, i.e. extinction rate of the sub clade;
l_2	the matrix containing the information about how the subclades are nested into the main clade. See sim_get_standard_l_2 for more info.
l_matrix_size	the initial length of the l matrix. It will be increased if necessary

Value

data for the clade

Author(s)

Giovanni Laudanno

Giappo/sls documentation built on Feb. 1, 2021, 9:55 a.m.