models2pam: models2pam: Converts binary rasters to a PAM

In bamm: Species Distribution Models as a Function of Biotic, Abiotic and Movement Factors (BAM)

models2pam: Converts binary rasters to a PAM

Description

Function to convert binary raster models to a Presence Absences Matrix.

Usage

models2pam(
  mods_stack,
  return_coords = FALSE,
  sparse = TRUE,
  parallel = FALSE,
  ncores = 2
)

Arguments

mods_stack	A raster stack containing binary models of each species in the community.
return_coords	Logical. If TRUE the pam will be returned with coordinates in the first two columns.
sparse	Logical. If TRUE the PAM will be returned as a sparse matrix.
parallel	Logical. If TRUE computations will be done in parallel
ncores	Integer. Number of cores to run the parallel process.

Details

For more information about PAM see Soberon and Cavner (2015).

Value

A presence-absence matrix (PAM).

Author(s)

Luis Osorio-Olvera & Jorge Soberón

References

\insertRef

Soberon2015bamm.

Examples

lagos_path <- system.file("extdata/conejos",
                          package = "bamm")
enm_path <- list.files(lagos_path,
                       pattern = ".tif",
                       full.names = TRUE)[1:10]
en_models <- raster::stack(enm_path) >0.01
pam <- bamm::models2pam(en_models,
                        return_coords=TRUE,
                        sparse=FALSE,
                        parallel=FALSE,ncores=2)
head(pam)

bamm documentation built on Sept. 11, 2024, 6:19 p.m.