ecodive: Parallel and Memory-Efficient Ecological Diversity Metrics
Computes alpha and beta diversity metrics using concurrent 'C' threads. Metrics include 'UniFrac', Faith's phylogenetic diversity, Bray-Curtis dissimilarity, Shannon diversity index, and many others. Also parses newick trees into 'phylo' objects and rarefies feature tables.
| Version: | 2.1.0 |
| Depends: | R (≥ 3.6.0) |
| Imports: | parallel, utils |
| Suggests: | knitr, parallelly, rmarkdown, testthat (≥ 3.0.0) |
| Published: | 2025-09-26 |
| DOI: | 10.32614/CRAN.package.ecodive |
| Author: | Daniel P. Smith 
[aut, cre],
Alkek Center for Metagenomics and Microbiome Research [cph, fnd] |
| Maintainer: | Daniel P. Smith <dansmith01 at gmail.com> |
| BugReports: | https://github.com/cmmr/ecodive/issues |
| License: | MIT + file LICENSE |
| URL: | https://cmmr.github.io/ecodive/, https://github.com/cmmr/ecodive |
| NeedsCompilation: | yes |
| Materials: | README, NEWS |
| CRAN checks: | ecodive results |
Documentation:
| Reference manual: | ecodive.html , ecodive.pdf |
| Vignettes: |
Alpha Diversity (source) Beta Diversity (source) Selecting a Beta Diversity Metric (source) Benchmarks (source, R code) Introduction to ecodive (source) UniFrac Calculations (source, R code) |
Downloads:
| Package source: | ecodive_2.1.0.tar.gz |
| Windows binaries: | r-devel: ecodive_2.1.0.zip, r-release: ecodive_2.1.0.zip, r-oldrel: ecodive_2.1.0.zip |
| macOS binaries: | r-release (arm64): ecodive_2.1.0.tgz, r-oldrel (arm64): ecodive_2.1.0.tgz, r-release (x86_64): ecodive_2.1.0.tgz, r-oldrel (x86_64): ecodive_2.1.0.tgz |
| Old sources: | ecodive archive |
Linking:
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