biodivMapR_chunk: apply biodivMapR (computes clusters + diversity metrics) to...

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

apply biodivMapR (computes clusters + diversity metrics) to an image chunk

Description

apply biodivMapR (computes clusters + diversity metrics) to an image chunk

Usage

biodivMapR_chunk(
  blk,
  r_in,
  window_size,
  Kmeans_info,
  Beta_info = NULL,
  alphametrics = "shannon",
  Hill_order = 1,
  FDmetric = NULL,
  SelectBands = NULL,
  pcelim = 0.02,
  nbCPU = 1,
  MinSun = 0.25,
  p = NULL
)

Arguments

blk	list. rows and number of rows to read from
r_in	list. path of rasters to read from
window_size	numeric. window size for square plots
Kmeans_info	list. kmeans description obtained from function get_kmeans
Beta_info	list. BC dissimilarity & associated beta metrics from training set
alphametrics	list. alpha diversity metrics: richness, shannon, simpson
Hill_order	numeric. Hill order
FDmetric	character. list of functional metrics
SelectBands	numeric. bands selected from input data
pcelim	numeric. minimum proportion of pixels to consider spectral species
nbCPU	numeric. Number of CPUs available
MinSun	numeric. minimum amount of sunlit pixels in the plots
p	list. progressor object for progress bar

Value

Shannon index correspnding to the distribution

jbferet/biodivMapR documentation built on April 12, 2025, 1:32 p.m.