delta.grid {phyloraster}

Delta of Diversity Metrics

Description

Calculates the difference of rasterized diversity metrics (richness, phylogenetic endemism, phylogenetic diversity, weighted endemism, evolutionary distinctiveness) between time periods.

Usage

delta.grid(r1, r2, filename = NULL, cores = 1, ...)

Arguments

r1

SpatRaster Rasterized diversity metrics for time 1 (e.g phylogenetic diversity in present). To calculate some diversity metrics for rasters see phyloraster::geo.phylo function.

r2

SpatRaster Rasterized diversity metrics for time 2 (e.g phylogenetic diversity in future).

filename

character. Output filename.

cores

positive integer. If cores > 1, a 'parallel' package cluster with that many cores is created and used.

...

additional arguments to be passed passed down from a calling function.

Details

The two input rasters (r1 and r2) must have the same extent.

Value

SpatRaster

Examples

# data
x <- terra::rast(system.file("extdata", "rast.presab.tif",
package="phyloraster"))
tree <- ape::read.tree(system.file("extdata", "tree.nex",
package="phyloraster"))

# metric SR richness
riq.pres <- rast.sr(x)
# imagine we lost some species in the future
riq.fut <- rast.sr(x[[c(1:15)]])
dg <- delta.grid(riq.pres, riq.fut)
terra::plot(dg)