maps beta diversity indicator based on spectral species distribution

map_beta_div(
  Input_Image_File = FALSE,
  Output_Dir = "",
  window_size = 10,
  TypePCA = "SPCA",
  nbclusters = 50,
  Nb_Units_Ordin = 2000,
  MinSun = 0.25,
  pcelim = 0.02,
  scaling = "PCO",
  dimMDS = 3,
  FullRes = FALSE,
  LowRes = TRUE,
  nbCPU = 1,
  MaxRAM = 0.25,
  ClassifMap = FALSE
)

Arguments

Input_Image_File: character. Path and name of the image to be processed.
Output_Dir: character. Output directory.
window_size: numeric. Dimensions of the spatial unit.
TypePCA: character. Type of PCA (PCA, SPCA, NLPCA...).
nbclusters: numeric. Number of clusters defined in k-Means.
Nb_Units_Ordin: numeric. Maximum number of spatial units to be processed in NMDS. –> 1000 will be fast but may not capture important patterns if large area –> 4000 will be slow but may show better ability to capture landscape patterns
MinSun: numeric. Minimum proportion of sunlit pixels required to consider plot.
pcelim: numeric. Minimum contribution in percent required for a spectral species.
scaling: character. PCO or NMDS
dimMDS: numeric. number of dimensions for the scaling.
FullRes: boolean.
LowRes: boolean.
nbCPU: numeric. Number of CPUs to use in parallel.
MaxRAM: numeric. MaxRAM maximum size of chunk in GB to limit RAM allocation when reading image file.
ClassifMap: character. If FALSE, perform standard biodivMapR based on SpectralSpecies. else corresponds to path for a classification map.

Value

PCoA_model