ENMTools (version 1.0.5)

enmtools.hypervolume: Takes an emtools.species object and environmental layers, and constructs a hypervolume using the R package hypervolume

Description

Takes an emtools.species object and environmental layers, and constructs a hypervolume using the R package hypervolume

Usage

enmtools.hypervolume(
  species,
  env,
  samples.per.point = 10,
  reduction.factor = 0.1,
  method = "gaussian",
  verbose = FALSE,
  clamp = TRUE,
  ...
)

Arguments

species

An enmtools.species object

env

A stack of environmental rasters

samples.per.point

To be passed to hypervolume_gaussian

reduction.factor

To be passed to hypervolume_project

method

Method for constructing hypervolumes, defaults to "gaussian"

verbose

Controls printing of various messages progress reports. Defaults to FALSE.

clamp

When set to TRUE, clamps the environmental layers so that predictions made outside the min/max of the training data for each predictor are set to the value for the min/max for that predictor. Prevents the model from extrapolating beyond the min/max bounds of the predictor space the model was trained in, although there could still be projections outside the multivariate training space if predictors are strongly correlated.

...

Extra parameters to be passed to hypervolume_gaussian

Value

An enmtools hypvervolume object containing a hypervolume object, a raster of suitability scores, the species name, and the occurrence data frame.

Examples

# NOT RUN {
install.extras(repos='http://cran.us.r-project.org')
data(euro.worldclim)
data(iberolacerta.clade)
env <- euro.worldclim[[c(1,8,12,17)]]
if(requireNamespace("hypervolume", quietly = TRUE)) {
    monticola.hv <- enmtools.hypervolume(iberolacerta.clade$species$monticola, env = env)
}
# }