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: | 2.2.1 |
| Depends: | R (≥ 3.6.0) |
| Imports: | parallel, utils |
| Suggests: | knitr,Matrix,parallelly,rmarkdown,slam,testthat (≥3.0.0) |
| Published: | 2025-12-12 |
| 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 + fileLICENSE |
| 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) Introduction to ecodive (source) Performance Guide (source) |
Downloads:
| Package source: | ecodive_2.2.1.tar.gz |
| Windows binaries: | r-devel:ecodive_2.2.0.zip, r-release:ecodive_2.2.1.zip, r-oldrel:ecodive_2.2.1.zip |
| macOS binaries: | r-release (arm64):ecodive_2.2.1.tgz, r-oldrel (arm64):ecodive_2.2.1.tgz, r-release (x86_64):ecodive_2.2.1.tgz, r-oldrel (x86_64):ecodive_2.2.1.tgz |
| Old sources: | ecodive archive |
Linking:
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