DAISIE_sim_core_checked: Runs one DAISIE simulation with a clade-specific carrying...

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

Description

Runs one DAISIE simulation with a clade-specific carrying capacity. Version of DAISIE_sim_core that checks all its inputs and uses descriptively named arguments

Usage

DAISIE_sim_core_checked(sim_time, n_mainland_species, clado_rate, ext_rate,
  carr_cap, imm_rate, ana_rate)

Arguments

sim_time	length of the simulated time
n_mainland_species	number of mainland species
clado_rate	cladogenesis rate
ext_rate	extinction rate
carr_cap	carrying capacity
imm_rate	immigration rate
ana_rate	anagenesis rate

Value

a list with these elements:

stt_table

a species-through-time table

branching_times

branching times

stac

the status of the colonist

• 1: Non_endemic_MaxAge (?immigrant is present but has not formed an extant clade)

• 2: Endemic (?immigrant is not present but has formed an extant clade)

• 3: Endemic&Non_Endemic (?immigrant is present and has formed an extant clade)

• 4: Non_endemic (?immigrant is present but has not formed an extant clade, and it is known when it immigrated)

missing_species

number of missing species

other_clades_same_ancestor

(not always present) ?no idea

Author(s)

Richel J.C. Bilderbeek

xieshu95/Trait_dependent_TraiSIE documentation built on Nov. 22, 2019, 7:51 a.m.