map_beta_div: maps beta diversity indicator based on spectral species...

In jbferet/biodivMapR: biodivMapR: an R package for a- and ß-diversity mapping using remotely-sensed images

maps beta diversity indicator based on spectral species distribution

Description

maps beta diversity indicator based on spectral species distribution

Usage

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

jbferet/biodivMapR documentation built on Jan. 26, 2024, 10:38 p.m.