DAISIE_plot_stt: Create the Species-Through-Time plot. This is used to...

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

Description

Create the Species-Through-Time plot. This is used to visualize the output of DAISIE_sim

Usage

DAISIE_plot_stt(plot_plus_one = TRUE, time, plot_lists = plot_lists,
  type = type, Tpars = NULL)

Arguments

plot_plus_one	Boolean to indicate to plot all values plus one. Set to TRUE for default behavior. Set to FALSE to plot all values without adding one. Only works when there is one type of species
time	the time span simulated
plot_lists	List of lists containing average and quantile species through time.
type	String to indicate if stt of all species or all possible stt should be plotted. Default is "all_species".
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 carrying capacity with trait state 2 on mainland [8]:A numeric with the number of species with trait state 2 on mainland

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