metricTester (version 1.3.6)

makeCDM: Wrapper for creating a CDM from a spatial simulation result

Description

Given the results of a single spatial simulation, and a desired number of plots and the length of one side of each plot, will place the plots down and output a CDM. Importantly, also carries along the regional abundance vector from the spatial simulation results if one was included.

Usage

makeCDM(single.simulation, no.plots, plot.length)

Arguments

single.simulation

The results of a single spatial simulation, e.g. a call to randomArena

no.plots

The desired number of plots in the final CDM

plot.length

The length of one side of each plot

Value

A list with the regional abundance from the single simulation result, if it included such a result, or the results of a call to abundanceVector() if not. The list also includes the CDM based on the parameters (number and size of plots) provided.

Details

Just a simple wrapper function to quickly turn spatial simulations into CDMs for subsequent analysis.

References

Miller, E. T., D. R. Farine, and C. H. Trisos. 2016. Phylogenetic community structure metrics and null models: a review with new methods and software. Ecography DOI: 10.1111/ecog.02070

Examples

# NOT RUN {
tree <- geiger::sim.bdtree(b=0.1, d=0, stop="taxa", n=50)

#prep the data for the simulation
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=3)

competition <- competitionArena(prepped)

test <- makeCDM(competition, 15, 30)
# }