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Transform predictions from species distribution models to binary

Source: R/transform_SDM.R
transform_SDM.Rd

Use model-specific threshold values to transform predicted probabilities of species presence, such as resulting from fit_SDM(), to binary predictions of presence or absence.

Usage

transform_SDM(
  pathin,
  SDM,
  landscape_name,
  regex = ".tif$",
  modlist,
  stat,
  pathout,
  overwrite = FALSE
)

Arguments

pathin, SDM, landscape_name

Character strings defining the filepath (pathin/SDM/landscape_name) containing the predicted probability of presence resulting from each distribution model, such as those created from running fit_SDM()

regex

Passed to list.files for selecting a subset of rasters from pathin/SDM/landscape_name; default is ".tif$"

modlist

List of model objects of class 'gbm' representing the distribution models to which new predictors should be fit.

stat

Character string defining the threshold statistic to be used; see dismo::threshold() for options

pathout

Filepath for the directory where results rasters should be written (pathout/SDM/landscape_name)

overwrite

Logical; passed to terra::writeRaster()

Value

Nothing returned to R environment. Writes rasters to pathout/SDM/landscape_name for each model in modlist

See also

fit_SDM()

Examples

# See vignette