perform_PCA: Performs PCA for all images and create PCA file with either...

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

Performs PCA for all images and create PCA file with either all or a selection of PCs

Description

Performs PCA for all images and create PCA file with either all or a selection of PCs

Usage

perform_PCA(
  Input_Image_File,
  Input_Mask_File,
  Output_Dir,
  Continuum_Removal = TRUE,
  TypePCA = "SPCA",
  NbPCs_To_Keep = 30,
  FilterPCA = FALSE,
  Excluded_WL = FALSE,
  nb_partitions = 20,
  nbCPU = 1,
  MaxRAM = 0.25
)

Arguments

Input_Image_File	character. Path of the image to be processed
Input_Mask_File	character. Path of the mask corresponding to the image
Output_Dir	character. Path for output directory
Continuum_Removal	boolean. Set to TRUE if continuum removal should be applied
TypePCA	character. Type of PCA: choose either "PCA" or "SPCA"
NbPCs_To_Keep	numeric. number of components to ke saved in the PCA file. default = 30 if set to FALSE (or nb PC if <30)
FilterPCA	boolean. Set to TRUE if 2nd filtering based on PCA is required
Excluded_WL	numeric. Water Vapor Absorption domains (in nanometers, min and max WL). Can also be used to exclude spectific domains. dims = N x 2 (N = number of domains to be eliminated)
nb_partitions	numeric. Number of repetitions to estimate diversity from the raster (averaging repetitions).
nbCPU	numeric. Number fo CPUs in use.
MaxRAM	numeric. Maximum size of chunk in GB to limit RAM allocation when reading image file.

Value

list of paths corresponding to resulting PCA files

jbferet/biodivMapR documentation built on April 25, 2024, 10:44 p.m.