View source: R/Lib_MapAlphaDiversity.R
map_alpha_div | R Documentation |
maps alpha diversity indicators based on prior selection of PCs
map_alpha_div(
Input_Image_File = FALSE,
Input_Mask_File = FALSE,
Output_Dir = "",
window_size = 10,
TypePCA = "SPCA",
nbclusters = 50,
MinSun = 0.25,
pcelim = 0.02,
Index_Alpha = "Shannon",
FullRes = FALSE,
LowRes = TRUE,
MapSTD = TRUE,
nbCPU = 1,
MaxRAM = 0.25,
ClassifMap = FALSE
)
Input_Image_File |
character. Path and name of the image to be processed. |
Input_Mask_File |
character. Path and name of the mask corresponding to the image to be processed. |
Output_Dir |
character. Output directory. |
window_size |
numeric. Size of spatial units (in pixels) to compute diversity. |
TypePCA |
character. Type of PCA (PCA, SPCA, NLPCA...). |
nbclusters |
numeric. Number of clusters defined in k-Means. |
MinSun |
numeric. Minimum proportion of sunlit pixels required to consider plot. |
pcelim |
numeric. Minimum contribution (in %) required for a spectral species. |
Index_Alpha |
character. Either 'Shannon', 'Simpson' or 'Fisher'. |
FullRes |
boolean. Full resolution. |
LowRes |
boolean. Low resolution. |
MapSTD |
boolean. map of standard deviation of the alpha diversity map (over repetitions) |
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. |
None
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