DAISIE_create_island: Converts simulation output into island output

In xieshu95/DAISIE_new: Dynamical Assembly of Islands by Speciation, Immigration and Extinction

Description

Converts simulation output into island output

Usage

DAISIE_create_island(
  stt_table,
  totaltime,
  island_spec,
  mainland_n,
  trait_pars = NULL
)

Arguments

stt_table	Matrix with number of species at each time step.
totaltime	Numeric defining the length of the simulation in time units.
island_spec	Matrix with current state of simulation containing number of species.
mainland_n	A numeric stating the number of mainland species, that is the number of species that can potentially colonize the island. If using a clade-specific diversity dependence, this value is set to 1. If using an island-wide diversity dependence, this value is set to the number of mainland species.
trait_pars	A named list containing diversification rates considering two trait states created by create_trait_pars: [1]:A numeric with the per capita transition rate with state1 [2]:A numeric with the per capita immigration rate with state2 [3]:A numeric with the per capita extinction rate with state2 [4]:A numeric with the per capita anagenesis rate with state2 [5]:A numeric with the per capita cladogenesis rate with state2 [6]:A numeric with the per capita transition rate with state2 [7]:A numeric with the number of species with trait state 2 on mainland

Value

list with the island information, composed stt table, branching times of extant species, status of species on the island and number of missing species.

xieshu95/DAISIE_new documentation built on March 20, 2020, 5:31 a.m.