pairwiseNicheOverlap: Make pairwise niche overlaps

In kaiyaprovost/subsppLabelR: Subspecies Labeled Occurences Generator

Make pairwise niche overlaps

Description

This function uses the background PCA grid for climate that was generated to calculate pairwise niche overlaps for the species.

Usage

pairwiseNicheOverlap(pca_grid_clim, verbose = T)

Arguments

pca_grid_clim

The grid for the climate PCA

Examples

loc_good_clean = cleanByEnvironment(Env, loc)
locs_thinned = spThinBySubspecies(loc_good_clean,thin.par=10,reps=1,lat.col="latitude",long.col="longitude",spec.col="assigned")
loc_thin_bgstuff = generateBackgroundForPCA(localities=loc_good[,c("Longitude","Latitude")],r=200000,num=(100*nrow(localities)),e=Env)
perspecies_bgstuff = generateBackgroundPerSpecies(loc_thin)
pcaOutput = createPcaToCompare(loc_thin_bgstuff,perspecies_bgstuffspecies)
pca_grid_clim = pcaOutput$grid_clim
overlap_df  = pairwiseNicheOverlap(pca_grid_clim)

kaiyaprovost/subsppLabelR documentation built on Feb. 28, 2025, 8 p.m.