Package: iNEXT.beta3D 1.0.2
Anne Chao
iNEXT.beta3D: Interpolation and Extrapolation with Beta Diversity for Three Dimensions of Biodiversity
As a sequel to 'iNEXT', the 'iNEXT.beta3D' package provides functions to compute standardized taxonomic, phylogenetic, and functional diversity (3D) estimates with a common sample size (for alpha and gamma diversity) or sample coverage (for alpha, beta, gamma diversity as well as dissimilarity or turnover indices). Hill numbers and their generalizations are used to quantify 3D and to make multiplicative decomposition (gamma = alpha x beta). The package also features size- and coverage-based rarefaction and extrapolation sampling curves to facilitate rigorous comparison of beta diversity across datasets. See Chao et al. (2023) <doi:10.1002/ecm.1588> for more details.
Authors:
iNEXT.beta3D_1.0.2.tar.gz
iNEXT.beta3D_1.0.2.zip(r-4.5)iNEXT.beta3D_1.0.2.zip(r-4.4)iNEXT.beta3D_1.0.2.zip(r-4.3)
iNEXT.beta3D_1.0.2.tgz(r-4.4-any)iNEXT.beta3D_1.0.2.tgz(r-4.3-any)
iNEXT.beta3D_1.0.2.tar.gz(r-4.5-noble)iNEXT.beta3D_1.0.2.tar.gz(r-4.4-noble)
iNEXT.beta3D_1.0.2.tgz(r-4.4-emscripten)iNEXT.beta3D_1.0.2.tgz(r-4.3-emscripten)
iNEXT.beta3D.pdf |iNEXT.beta3D.html✨
iNEXT.beta3D/json (API)
NEWS
| # Install 'iNEXT.beta3D' in R: |
| install.packages('iNEXT.beta3D', repos = c('https://annechao.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/annechao/inext.beta3d/issues
- Brazil_distM - Species pairwise distance matrix for species in the dataset 'Brazil_rainforests'
- Brazil_rainforests - Brazil rainforests data
- Brazil_tree - Phylogenetic tree for Brazil abundance data
- Second_growth_forests - Second-growth forests data
Last updated 7 months agofrom:9429571ae9. Checks:OK: 7. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Oct 14 2024 |
| R-4.5-win | OK | Oct 14 2024 |
| R-4.5-linux | OK | Oct 14 2024 |
| R-4.4-win | OK | Oct 14 2024 |
| R-4.4-mac | OK | Oct 14 2024 |
| R-4.3-win | OK | Oct 14 2024 |
| R-4.3-mac | OK | Oct 14 2024 |
Exports:DataInfobeta3DggiNEXTbeta3DiNEXTbeta3D
Dependencies:abindapeclicodetoolscolorspacecpp11digestdplyrfansifarverfsfuturefuture.applygenericsggplot2globalsgluegtableiNEXT.3DisobandlabelinglatticelazyevallifecyclelistenvmagrittrMASSMatrixmgcvmunsellnlmeparallellyphyclustpillarpkgconfigplyrpurrrR6RColorBrewerRcppreshape2rlangscalesstringistringrtibbletidyrtidyselecttidytreeutf8vctrsviridisLitewithryulab.utils
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Interpolation and extrapolation with beta diversity for three dimensions of biodiversity | iNEXT.beta3D-package iNEXT.beta3D |
| Species pairwise distance matrix for species in the dataset 'Brazil_rainforests' | Brazil_distM |
| Brazil rainforests data (datatype = "abundance" for TD, PD, and FD) | Brazil_rainforests |
| Phylogenetic tree for Brazil abundance data | Brazil_tree |
| Data information for reference samples | DataInfobeta3D |
| ggplot2 extension for the iNEXTbeta3D object | ggiNEXTbeta3D |
| iNterpolation and EXTrapolation with beta diversity for TD, PD and FD | iNEXTbeta3D |
| Printing 'iNEXTbeta3D' object | print.iNEXTbeta3D |
| Second-growth forests data (datatype = "incidence_raw" for taxonomic diversity) | Second_growth_forests |