hilldiv3: Integral Analysis of Diversity Based on Hill Numbers
Measures and compares the diversity of biological communities
(e.g. tables of operational taxonomic units (OTUs), amplicon sequence
variants (ASVs) or metagenome-assembled genomes (MAGs)) based on Hill
numbers, in a unified framework for neutral, phylogenetic and functional
diversity measurement, diversity partitioning, (dis)similarity
measurement, diversity profiles, evenness and redundancy. The
statistical framework encompasses richness, Shannon and Simpson
diversity, Faith's phylogenetic diversity (PD), Rao's quadratic entropy
and Sorensen- and UniFrac-type dissimilarities, all grounded in a single
Hill-number framework. Methods are described in Jost (2007)
<doi:10.1890/06-1736.1>, Chao et al. (2010)
<doi:10.1098/rstb.2010.0272>, Chiu et al. (2014) <doi:10.1890/12-0960.1>
and reviewed in Alberdi & Gilbert (2019) <doi:10.1111/1755-0998.13014>.
Optional import adapters interoperate with the Bioconductor packages
'phyloseq', 'SummarizedExperiment' and 'TreeSummarizedExperiment',
which are available from <https://bioconductor.org>.
| Version: |
3.0.0 |
| Depends: |
R (≥ 4.1.0) |
| Imports: |
ape, cli, grDevices, graphics, methods, rlang, stats, utils |
| Suggests: |
cluster, furrr, future, ggplot2, knitr, patchwork, phyloseq, progressr, rmarkdown, SummarizedExperiment, testthat (≥
3.0.0), tibble, TreeSummarizedExperiment, vegan |
| Published: |
2026-10-06 |
| DOI: |
10.32614/CRAN.package.hilldiv3 (may not be active yet) |
| Author: |
Antton Alberdi 
[aut, cre] |
| Maintainer: |
Antton Alberdi <antton.alberdi at sund.ku.dk> |
| BugReports: |
https://github.com/alberdilab/hilldiv3/issues |
| License: |
GPL-3 |
| URL: |
https://github.com/alberdilab/hilldiv3,
https://alberdilab.github.io/hilldiv3/ |
| NeedsCompilation: |
no |
| Language: |
en-GB |
| Materials: |
README, NEWS |
| CRAN checks: |
hilldiv3 results |
Documentation:
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