DAISIE_plot_cladogenesis: Plot cladogenesis rate through time

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

Description

Plot cladogenesis rate through time

Usage

DAISIE_plot_cladogenesis(
  totaltime,
  K,
  area_pars,
  lac,
  island_ontogeny = "beta",
  hyper_pars = NULL,
  dist_pars = NULL,
  removed_timepoints,
  resolution
)

Arguments

totaltime	total time of simulation
K	K (clade-level carrying capacity)
area_pars	a named list containing area and sea level parameters as created by create_area_pars: [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 [5]: amplitude of area fluctuation from sea level [6]: frequency of sine wave of area change from sea level
lac	minimum per capita cladogenesis rate
island_ontogeny	a string describing the type of island ontogeny. Can be NULL, beta for a beta function describing area through time.
hyper_pars	A numeric vector for hyperparameters for the rate calculations: [1]: is d_0 the scaling parameter for exponent for calculating cladogenesis rate [2]: is x the exponent for calculating extinction rate [3]: is alpha, the exponent for calculating the immigration rate [4]: is beta the exponent for calculating the anagenesis rate.
dist_pars	a numeric for the distance from the mainland.
removed_timepoints	starting position of time vector
resolution	resolution of time axis

Value

a plot with per capita cladogenesis rate through time and dataframe with immigration at corresponding time

Author(s)

Pedro Neves

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