DAISIE_sim_with_ontogeny: Internal function of the DAISIE simulation

In xieshu95/Test-Trasie: Dynamical Assembly of Islands by Speciation, Immigration and Extinction

Description

Internal function of the DAISIE simulation

Usage

DAISIE_sim_with_ontogeny(time, mainland_n, pars, Apars = NULL,
  Epars = NULL, Tpars = NULL, island_ontogeny = "const")

Arguments

time	Simulated amount of time
mainland_n	A numeric stating the number of mainland species, that is, the number of species that can potentially colonize the island. If DAISIE_sim uses a clade-specific diversity dependence, this value is set to 1. If DAISIE_sim uses an island-specific diversity dependence, this value is set to the number of mainland species.
pars	A numeric vector: [1]: cladogenesis rate [2]: extinction rate [3]: carrying capacity [4]: immigration rate [5]: anagenesis rate
Apars	A named list containing area parameters as created by create_area_params: [1]: maximum area [2]: value from 0 to 1 indicating where in the island's history the peak area is achieved [3]: sharpness of peak [4]: total island age
Epars	A numeric vector: [1]: minimum extinction when area is at peak [2]: extinction rate when current area is 0.10 of maximum area
Tpars	A named list containing diversification rates considering two trait states: [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
island_ontogeny	A string describing the type of island ontogeny. Can be "const", "beta" for a beta function describing area through time, or "linear" for a linear function

xieshu95/Test-Trasie documentation built on Dec. 18, 2019, 7:34 a.m.