metricTester (version 1.2.2)

filteringArena: Simulate a community assembled according to habitat filtering

Description

Given a simulations.input object, will create an arena settled according to habitat filtering rules (and parameters defined by prepSimulations).

Usage

filteringArena(simulations.input)

Arguments

simulations.input

A prepared simulations.input object from prepSimulations

Value

A list of 3 elements: the original input regional abundance vector, the new spatial arena, and the dimensions of that arena.

Details

This simulation has been updated to avoid a previous consequence where individuals clumped near the center of the arena. Now, species' spatial preferences, which previously would have approximated a normal distribution around the center of the arena, are smoothed to a uniform distribution. Thus, individuals are more evenly distributed throughout the simulated arena.

References

Miller, E. T., D. R. Farine, and C. H. Trisos. 2015. Phylogenetic community structure metrics and null models: a review with new methods and software. bioRxiv 025726.

Examples

tree <- geiger::sim.bdtree(b=0.1, d=0, stop="taxa", n=50)

prepped <- prepSimulations(tree, arena.length=300, mean.log.individuals=2, 
	length.parameter=5000, sd.parameter=50, max.distance=20, proportion.killed=0.2,
	competition.iterations=2)

test <- filteringArena(prepped)