maps spectral species based on PCA file computed previously

map_spectral_species(
  Input_Image_File,
  Output_Dir,
  SpectralSpace_Output,
  Input_Mask_File = FALSE,
  nbclusters = 50,
  nbCPU = 1,
  MaxRAM = 0.25,
  Kmeans_Only = FALSE,
  SelectedPCs = FALSE,
  SpectralFilter = NULL,
  Kmeans_info_path = NULL,
  Kmeans_info = NULL,
  algorithm = "Hartigan-Wong",
  progressbar = FALSE
)

Arguments

Input_Image_File: character. Path of the image to be processed
Output_Dir: character. Path for output directory
SpectralSpace_Output: list. list of variables produced from function perform_PCA
Input_Mask_File: character. Path of the mask corresponding to the image
nbclusters: numeric. number of clusters defined in k-Means
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.
Kmeans_Only: boolean. set to TRUE if computation of kmeans without production of spectral species map
SelectedPCs: numeric. Define PCs to be selected. Set to FALSE if you want to use the "Selected_Components.txt" file
SpectralFilter: list. information about spectral band location
Kmeans_info_path: character. path to a Kmeans_info Rdata file computed from previous process
Kmeans_info: list. Kmeans_info list computed from previous process (central wavelength), bands to keep...
algorithm: character. algorithm used in the kmeans clustering
progressbar: boolean. should progress bar be displayed (set to TRUE only if no conflict of parallel process)

Value

Kmeans_info