phyloregion: Biogeographic Regionalization and Macroecology
Computational infrastructure for biogeography, community ecology, and biodiversity conservation (Daru et al. 2020) <doi:10.1111/2041-210X.13478>. It is based on the methods described in Daru et al. (2020) <doi:10.1038/s41467-020-15921-6>. The original conceptual work is described in Daru et al. (2017) <doi:10.1016/j.tree.2017.08.013> on patterns and processes of biogeographical regionalization. Additionally, the package contains fast and efficient functions to compute more standard conservation measures such as phylogenetic diversity, phylogenetic endemism, evolutionary distinctiveness and global endangerment, as well as compositional turnover (e.g., beta diversity).
| Version: | 1.0.9 |
| Depends: | R (≥ 4.1.0) |
| Imports: | ape, phangorn, Matrix, betapart, parallel, methods, colorspace, igraph, clustMixType, maptpx, terra, vegan, predicts, smoothr |
| Suggests: | tinytest, knitr, rmarkdown, mapproj, survival, rJava, phyloseq, V8 |
| Published: | 2025-07-15 |
| DOI: | 10.32614/CRAN.package.phyloregion |
| Author: | Barnabas H. Daru 
[aut, cre, cph],
Piyal Karunarathne
[aut],
Klaus Schliep
[aut],
Xiaobei Zhao [ctb],
Albin Sandelin [ctb],
Luciano Pataro [ctb] |
| Maintainer: | Barnabas H. Daru <darunabas at gmail.com> |
| BugReports: | https://github.com/darunabas/phyloregion/issues |
| License: | AGPL-3 |
| URL: | https://github.com/darunabas/phyloregion, https://phyloregion.com/index.html |
| NeedsCompilation: | no |
| Citation: | phyloregion citation info |
| Materials: | README, NEWS |
| In views: | Phylogenetics |
| CRAN checks: | phyloregion results |
Documentation:
| Reference manual: | phyloregion.html , phyloregion.pdf |
| Vignettes: |
Benchmarking phyloregion (source) Fast Evolutionary Distinctiveness (source) An introduction to the phyloregion package (source, R code) |
Downloads:
| Package source: | phyloregion_1.0.9.tar.gz |
| Windows binaries: | r-devel: phyloregion_1.0.9.zip, r-release: phyloregion_1.0.9.zip, r-oldrel: phyloregion_1.0.9.zip |
| macOS binaries: | r-release (arm64): phyloregion_1.0.9.tgz, r-oldrel (arm64): phyloregion_1.0.9.tgz, r-release (x86_64): phyloregion_1.0.9.tgz, r-oldrel (x86_64): phyloregion_1.0.9.tgz |
| Old sources: | phyloregion archive |
Reverse dependencies:
| Reverse imports: | canaper |
Linking:
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