compute spectral species distribution from original spectral species map

compute_SSD(
  Image_Chunk,
  window_size,
  nbclusters,
  MinSun = 0.25,
  pcelim = 0.02,
  Index_Alpha = "Shannon",
  nbCPU = 1,
  nbPieces = 1,
  Mask_Chunk = FALSE,
  progressbar = FALSE
)

Arguments

Image_Chunk: numeric. 3D image chunk of spectral species
window_size: numeric. size of spatial units (in pixels) to compute diversity
nbclusters: number of clusters defined in k-Means
MinSun: minimum proportion of sunlit pixels required to consider plot
pcelim: minimum proportion for a spectral species to be included
Index_Alpha: list. list of alpha diversity indices to be computed from spectral species
nbCPU: numeric. Number of CPUs to use in parallel.
nbPieces: numeric. number of pieces in which original image is split
Mask_Chunk: numeric. 3D image chunk of mask (optional)
progressbar: boolean. should progress bar be displayed (set to TRUE only if no conflict of parallel process)

Value

list of alpha diversity metrics for each iteration