iNEXT.3D: Interpolation and Extrapolation for Three Dimensions of
Biodiversity
Biodiversity is a multifaceted concept covering different levels of organization from
genes to ecosystems. 'iNEXT.3D' extends 'iNEXT' to include three dimensions (3D)
of biodiversity, i.e., taxonomic diversity (TD), phylogenetic diversity (PD) and functional
diversity (FD). This package provides functions to compute standardized 3D diversity estimates
with a common sample size or sample coverage. A unified framework based on Hill numbers
and their generalizations (Hill-Chao numbers) are used to quantify 3D. All 3D estimates
are in the same units of species/lineage equivalents and can be meaningfully compared.
The package features size- and coverage-based rarefaction and extrapolation sampling
curves to facilitate rigorous comparison of 3D diversity across individual assemblages.
Asymptotic 3D diversity estimates are also provided. See Chao et al. (2021)
<doi:10.1111/2041-210X.13682> for more details.
| Version: |
1.0.4 |
| Depends: |
R (≥ 4.0) |
| Imports: |
stats, tibble, ggplot2, reshape2, tidytree, phyclust, dplyr, ape, Rcpp |
| LinkingTo: |
Rcpp |
| Suggests: |
testthat, knitr, rmarkdown, gridExtra, ggthemes |
| Published: |
2024-03-28 |
| Author: |
Anne Chao [aut, cre],
KaiHsiang Hu [ctb] |
| Maintainer: |
Anne Chao <chao at stat.nthu.edu.tw> |
| BugReports: |
https://github.com/AnneChao/iNEXT.3D/issues |
| License: |
GPL (≥ 3) |
| URL: |
https://sites.google.com/view/chao-lab-website/software/inext-3d |
| NeedsCompilation: |
yes |
| Citation: |
iNEXT.3D citation info |
| Materials: |
NEWS |
| CRAN checks: |
iNEXT.3D results |
Documentation:
Downloads:
Reverse dependencies:
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