sim_poisson_community: Simulate community with random spatial positions.

In MoBiodiv/MoBspatial: Spatial Simulation and Scale-Dependent Analysis of Biodiversity Changes

Simulate community with random spatial positions.

Description

This function simulates a community with a certain abundance distribution and and random spatial coordinates. This function consecutively calls sim_sad and sim_poisson_coords

Usage

sim_poisson_community(
  s_pool,
  n_sim,
  sad_type = "lnorm",
  sad_coef = list(cv_abund = 1),
  fix_s_sim = FALSE,
  xrange = c(0, 1),
  yrange = c(0, 1),
  seed = NULL
)

Arguments

s_pool	Number of species in the pool (integer)
n_sim	Number of individuals in the simulated community (integer)
sad_type	Root name of the species abundance distribution model of the species pool (character) - e.g., "lnorm" for the lognormal distribution (rlnorm); "geom" for the geometric distribution (rgeom), or "ls" for Fisher's log-series distribution (rls). See the table in Details below, or rsad for all SAD model options.
sad_coef	List with named arguments to be passed to the distribution function defined by the argument sad_type. An overview of parameter names is given in the table below. In mobsim the log-normal and the Poisson log-normal distributions can alternatively be parameterized by the coefficient of variation (cv) of the relative abundances in the species pool. Accordingly, cv_abund is the standard deviation of abundances divided by the mean abundance (no. of individuals / no. of species). cv_abund is thus negatively correlated with the evenness of the species abundance distribution. Please note that the parameters mu and sigma are not equal to the mean and standard deviation of the log-normal distribution.
fix_s_sim	Should the simulation constrain the number of species in the simulated local community? (logical)
xrange	Extent of the community in x-direction (numeric vector of length 2)
yrange	Extent of the community in y-direction (numeric vector of length 2)
seed	Integer. Any integer passed to set.seed for reproducibility.

Value

A community object as defined by community.

Author(s)

Felix May

Examples

com1 <- sim_poisson_community(s_pool = 20, n_sim = 500, sad_type = "lnorm",
sad_coef = list("meanlog" = 2, "sdlog" = 1))
plot(com1)

MoBiodiv/MoBspatial documentation built on April 1, 2024, 8:33 a.m.