DarkDiv: Estimating Dark Diversity and Site-Specific Species Pools

Estimation of dark diversity and site-specific species pools using species co-occurrences. It includes implementations of probabilistic dark diversity based on the Hypergeometric distribution, as well as estimations based on the Beals index, which can be transformed to binary predictions using different thresholds, or transformed into a favorability index. All methods include the possibility of using a calibration dataset that is used to estimate the indication matrix between pairs of species, or to estimate dark diversity directly on a single dataset. See De Caceres and Legendre (2008) <doi:10.1007/s00442-008-1017-y>, Lewis et al. (2016) <doi:10.1111/2041-210X.12443>, Partel et al. (2011) <doi:10.1016/j.tree.2010.12.004>, Real et al. (2017) <doi:10.1093/sysbio/syw072> for further information.

Version: 0.3.0
Imports: vegan, stats
Suggests: testthat
Published: 2020-07-15
Author: Carlos P. Carmona and Meelis Partel
Maintainer: Carlos P. Carmona <perezcarmonacarlos at gmail.com>
License: GPL-3
NeedsCompilation: no
CRAN checks: DarkDiv results


Reference manual: DarkDiv.pdf
Package source: DarkDiv_0.3.0.tar.gz
Windows binaries: r-devel: DarkDiv_0.3.0.zip, r-release: DarkDiv_0.3.0.zip, r-oldrel: DarkDiv_0.3.0.zip
macOS binaries: r-release: DarkDiv_0.3.0.tgz, r-oldrel: DarkDiv_0.3.0.tgz
Old sources: DarkDiv archive


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