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: 1.0.0
Depends: R (≥ 3.6.0)
Imports: parallel, utils
Suggests: knitr, rmarkdown, testthat (≥ 3.0.0)
Published: 2025-08-22
DOI: 10.32614/CRAN.package.ecodive
Author: Daniel P. Smith ORCID iD [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)
Benchmarks (source, R code)
Introduction to ecodive (source)
UniFrac Calculations (source, R code)

Downloads:

Package source: ecodive_1.0.0.tar.gz
Windows binaries: r-devel: not available, r-release: not available, r-oldrel: not available
macOS binaries: r-release (arm64): not available, r-oldrel (arm64): not available, r-release (x86_64): ecodive_1.0.0.tgz, r-oldrel (x86_64): ecodive_1.0.0.tgz

Linking:

Please use the canonical form https://CRAN.R-project.org/package=ecodive to link to this page.