pilot_study_parameters: Matrix with island ontogeny simulation parameters
In Neves-P/utilSIE: Utility Functions for DAISIE

Description Usage Format Source

An example dataset useful for DAISIE pilot studies assuming island ontogeny. Area parameters are inspired in Hawaii. Extinction parameters are purposefuly high, to ensure ontogeny effects are noticeable. Format is generated by experiment_setup and ready to be passed to execute_next_setup.

1	pilot_study_parameters

A data frame with 3 rows, each corresponding to a scenario, made up of 14 variables (in each column):

time: Numeric double containing length of the simulation in time units. For example, if an island is know to be 4 million years old, setting time = 4 will simulate entire life span of the island; setting time = 2 will stop the simulation at the mid-life of the island.
M: Numeric integer containing the size of the mainland pool, i.e the number of species that can potentially colonize the island.
lac: Numeric double containing the cladogenesis rate (lambda^c).
mu: Numeric double containing the extinction rate. Used only on non ontogeny scenarios.
K: Numeric double containing the carrying capacity (clade level). Set K = Inf for no diversity dependence.
gam: Numeric double containing the immigration rate (gamma).
laa: Numeric double containing the anagenesis rate (lambda^a).
replicates: Numeric integer stating how many replicates should be run per scenario.
mu_min: Numeric double containing the minimum extinction when area is at peak, used only on ontogeny scenarios.
mu_max: Numeric double containing the extinction rate when current area is 0.10 of maximum area, used only on ontogeny scenarios.
Amax: Numeric double containing the maximum area, used only on ontogeny scenarios.
Apeak: Numeric double containing the value from 0 to 1 indicating where in the island's history the peak area is achieved, used only on ontogeny scenarios.
Asharpness: Numeric double containing the sharpness of peak, used only on ontogeny scenarios.
Atotalage: Numeric double containing the total island age, used only on ontogeny scenarios.