DarkDiv
Estimating Dark Diversity and Site-Specific Species Pools
Description
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.
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| Flavor | Status |
|---|---|
| r-devel-linux-x86_64-debian-clang | NOTE |
| r-devel-linux-x86_64-debian-gcc | NOTE |
| r-devel-linux-x86_64-fedora-clang | OK |
| r-devel-linux-x86_64-fedora-gcc | OK |
| r-devel-macos-arm64 | OK |
| r-devel-windows-x86_64 | OK |
| r-oldrel-macos-arm64 | NOTE |
| r-oldrel-macos-x86_64 | NOTE |
| r-oldrel-windows-x86_64 | NOTE |
| r-patched-linux-x86_64 | OK |
| r-release-linux-x86_64 | OK |
| r-release-macos-arm64 | OK |
| r-release-macos-x86_64 | OK |
| r-release-windows-x86_64 | OK |
Check details (5 non-OK)
CRAN incoming feasibility
Maintainer: ‘Carlos P. Carmona <perezcarmonacarlos@gmail.com>’
No Authors@R field in DESCRIPTION.
Please add one, modifying
Authors@R: c(person(given = c("Carlos", "P."),
family = "Carmona",
role = c("aut", "cre"),
email = "perezcarmonacarlos@gmail.com"),
person(given = "Meelis",
family = "Partel",
role = "aut"))
as necessary.
CRAN incoming feasibility
Maintainer: ‘Carlos P. Carmona <perezcarmonacarlos@gmail.com>’
No Authors@R field in DESCRIPTION.
Please add one, modifying
Authors@R: c(person(given = c("Carlos", "P."),
family = "Carmona",
role = c("aut", "cre"),
email = "perezcarmonacarlos@gmail.com"),
person(given = "Meelis",
family = "Partel",
role = "aut"))
as necessary.
LazyData
'LazyData' is specified without a 'data' directory
LazyData
'LazyData' is specified without a 'data' directory
LazyData
'LazyData' is specified without a 'data' directory
Check History
NOTE 9 OK · 5 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE Mar 10, 2026
CRAN incoming feasibility
Maintainer: ‘Carlos P. Carmona <perezcarmonacarlos@gmail.com>’
No Authors@R field in DESCRIPTION.
Please add one, modifying
Authors@R: c(person(given = c("Carlos", "P."),
family = "Carmona",
role = c("aut", "cre"),
email = "perezcarmonacarlos@gmail.com"),
person(given = "Meelis",
family = "Partel",
role = "aut"))
as necessary.
CRAN incoming feasibility
Maintainer: ‘Carlos P. Carmona <perezcarmonacarlos@gmail.com>’
No Authors@R field in DESCRIPTION.
Please add one, modifying
Authors@R: c(person(given = c("Carlos", "P."),
family = "Carmona",
role = c("aut", "cre"),
email = "perezcarmonacarlos@gmail.com"),
person(given = "Meelis",
family = "Partel",
role = "aut"))
as necessary.
LazyData
'LazyData' is specified without a 'data' directory
LazyData
'LazyData' is specified without a 'data' directory
LazyData
'LazyData' is specified without a 'data' directory