nicheOverlap: Niche overlap

In dismo: Species Distribution Modeling

Description

Compute niche overlap from predictions of species distributions with the 'I' or 'D' similarity statistic of Warren et al. (2009). The statistic ranges from 0 (no overlap) to 1 (the distributions are identical).

Usage

 nicheOverlap(x, y, stat='I', mask=TRUE, checkNegatives=TRUE) 

Arguments

x	RasterLayer with non-negative values (predictions of the probability that a site is suitable for a species)
y	RasterLayer with non-negative values, as above
stat	character either 'I' or 'D' to get the statistic with that name
mask	logical. If TRUE the function removes cells from x that are NA in y and vice-versa. If you are sure that such cases do not occur you can set this to FALSE to speed up computations
checkNegatives	logical. If TRUE the function checks of any of the values in x and y are negative. If you are sure that such cases do not occur you can set this to FALSE to speed up computations

Value

numeric

Author(s)

Based on SDMTools::Istat by Jeremy VanDerWal

References

Warren, D.L., R.E. Glor, M. Turelli, and D. Funk. 2009. Environmental niche equivalency versus conservatism: quantitative approaches to niche evolution. Evolution 62:2868-2883; Erratum: Evolution 65: 1215

Examples

r1 <- raster(nr=18, nc=36)
r2 <- raster(nr=18, nc=36)
set.seed(0)
r1[] <- runif(ncell(r1))
r2[] <- runif(ncell(r1))
nicheOverlap(r1, r2)

Example output

Loading required package: raster
Loading required package: sp
NOTE: rgdal::checkCRSArgs: no proj_defs.dat in PROJ.4 shared files
NOTE: rgdal::checkCRSArgs: no proj_defs.dat in PROJ.4 shared files
NOTE: rgdal::checkCRSArgs: no proj_defs.dat in PROJ.4 shared files
NOTE: rgdal::checkCRSArgs: no proj_defs.dat in PROJ.4 shared files
NOTE: rgdal::checkCRSArgs: no proj_defs.dat in PROJ.4 shared files
NOTE: rgdal::checkCRSArgs: no proj_defs.dat in PROJ.4 shared files
NOTE: rgdal::checkCRSArgs: no proj_defs.dat in PROJ.4 shared files
[1] 0.8891728

dismo documentation built on May 2, 2019, 6:07 p.m.