DAISIE_calc_sumstats_pcrates: Calculate summary statistics of per capita rates

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

Description

Calculates the summary statistics of per capita rates throught an ontogeny simulation

Usage

DAISIE_calc_sumstats_pcrates(pars, Apars, Epars, totaltime,
  island_ontogeny = "beta", extcutoff = 1100, mainland_n = 1000,
  resol = 100)

Arguments

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
totaltime	A numeric indicating total time of simulation
island_ontogeny	a string describing the type of island ontogeny. Can be NULL, "beta" for a beta function describing area through time, or "linear" for a linear function
extcutoff	cutoff for extinction rate preventing it from being too large and slowing down simulation. Default is 1100
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.
resol	A numeric indicating number of decimals per unit time. Default is 100

Value

A named list with mean and median values of specified parameters

Author(s)

Pedro Neves

References

Valente, Luis M., Rampal S. Etienne, and Albert B. Phillimore. "The effects of island ontogeny on species diversity and phylogeny." Proceedings of the Royal Society of London B: Biological Sciences 281.1784 (2014): 20133227.

See Also

Does the same as DAISIE_calc_clade_ext_rate

Other rates calculation: DAISIE_plot_area, get_ana_rate, get_immig_rate, get_t_hor, get_trans_rate, island_area_vector, island_area, update_rates

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