maps beta diversity indicator based on spectral species distribution

map_beta_div(Input_Image_File, Output_Dir, window_size, TypePCA = "SPCA",
  nb_partitions = 20, nbclusters = 50, Nb_Units_Ordin = 2000,
  MinSun = 0.25, pcelim = 0.02, scaling = "PCO", FullRes = TRUE,
  LowRes = FALSE, nbCPU = 1, MaxRAM = 0.25)

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...).

nb_partitions

numeric. Number of partitions (repetitions) to be computed then averaged.

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 %) required for a spectral species

scaling

character. "PCO" or "NMDS".

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.

Value

None