R Observatory: Metrics for abdiv version 0.2.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

abdiv

0.2.0

Alpha and Beta Diversity Measures

1packages depend

9.1Kdownloads / year

100.0%test coverage

8/13checks pass

Overview

About

Maintained by Kyle BittingerFirst published 2020-01-201 releasesCRAN page ↗GitHub ↗

A collection of measures for measuring ecological diversity. Ecological diversity comes in two flavors: alpha diversity measures the diversity within a single site or sample, and beta diversity measures the diversity across two sites or samples. This package overlaps considerably with other R packages such as 'vegan', 'gUniFrac', 'betapart', and 'fossil'. We also include a wide range of functions that are implemented in software outside the R ecosystem, such as 'scipy', 'Mothur', and 'scikit-bio'. The implementations here are designed to be basic and clear to the reader.

Latest changes · 0.2.0

Install

R (CRAN)pak (dev)Ubuntu (r2u)Fedora (COPR)openSUSE (OBS)

install.packages("abdiv", repos = "https://cloud.r-project.org/")

Installs the current CRAN release. Prebuilt binaries on Windows and macOS.

if (!requireNamespace("pak", quietly = TRUE))
  install.packages("pak", repos = "https://cloud.r-project.org/")
pak::pak("kylebittinger/abdiv")

Development version from kylebittinger/abdiv. Installs pak first if it is not already available.

Release

# enable cranapt (r2u) if it is not already set up, then install
grep -rqs r2u.stat.illinois.edu /etc/apt/sources.list /etc/apt/sources.list.d/ \
  || curl -fsSL https://raw.githubusercontent.com/eddelbuettel/r2u/master/inst/scripts/add_cranapt_noble.sh | sudo bash
sudo apt install -y r-cran-abdiv

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled.

bspm (used by r2u) also needs make: sudo apt install make

# enable the iucar/cran COPR if it is not already present, then install
ls /etc/yum.repos.d/*iucar*cran*.repo >/dev/null 2>&1 \
  || sudo dnf copr enable -y iucar/cran
sudo dnf install -y R-CRAN-abdiv

RPMs from the iucar/cran COPR, rebuilt from CRAN.

For install.packages() integration in R, also: sudo dnf install R-CoprManager

# add the autoCRAN OBS repo (Tumbleweed) if it is missing, then install
zypper -q lr | grep -qi autoCRAN \
  || sudo zypper addrepo https://download.opensuse.org/repositories/devel:/languages:/R:/autoCRAN/openSUSE_Tumbleweed/devel:languages:R:autoCRAN.repo
sudo zypper install -y R-abdiv

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed).

Health

CRAN checks

5NOTE8OK

Failing flavors

NOTE r-devel-linux-x86_64-debian-clang
NOTE r-devel-linux-x86_64-debian-gcc
NOTE r-devel-linux-x86_64-fedora-clang
NOTE r-devel-linux-x86_64-fedora-gcc
NOTE r-devel-windows-x86_64

Slowest check: 1.2 min · r-oldrel-windows-x86_64

Code health

Yes

Tests · ratio 0.52

100.0%

Coverage · measured lines

100%

Documentation · exports

1

Dependencies · direct

Check history

NOTE2026-07-16
11 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 1,646 wordsVignettesNopkgdown siteNoNEWSYes · 67% structuredCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 44%
Return-value docs: 97%
References docs: 44%

Downloads

9.1K

CRAN downloads in the past year

Rank #4,623 · ~25/day · ~756/mo

Releases R versions

Daily download trend is not available in this view yet.

45530 days

1.7K90 days

9.1K1 year

Compare downloads with other packages →

Also on122 r2u46 autocran157 conda_forge149 bioconda

Repository

GitHub ↗ kylebittinger/abdiv

10Stars

6Forks

4Open issues

0Open PRs

1Releases

164Commits

1Contributors

164 commits · Last activity 2026-03-16 · 0% stars, 30d

Stars over time

2023-12-12 · 92026-07-07 · 10

Repository practices

Upstream repositoryBeta

6 development-tooling and community-health practices detected across 5 families in the upstream repository

Checks run against github.com/kylebittinger/abdiv on 2026-08-23.

Continuous integration (2)

GitHub ActionsTravis CI

Reproducibility and dev environment (1)

data-raw/

CRAN release process (1)

cran-comments.md

Docs source (1)

README.Rmd

Show all practices

Lint, format, editor (1)

RStudio project

How this is detected·Detection ruleset v1 (2026-07-18)

Dependencies

Declared dependencies

3 external dependencies (excludes base and recommended)

Depends (0)

none

Imports (1)

ape

LinkingTo (0)

none

Suggests (2)

testthat vegan

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

0indirect

henna

Code & Tests

Datasets

People & History

People (1)

Maintainer (1)

Kyle Bittinger

Author, Maintainer

Authors (1)

Kyle Bittinger

Author, Maintainer

Package Timeline

1 release. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
0.2.0Latest
2026-03-10 · current release
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2020-01-20
Total releases: 1 / 6 yrs
License: MIT + file LICENSE OSI
Bundled data: 1.4 KB / 5 files
Download size: 455 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("abdiv")

Format

Bittinger, K. (2020). abdiv: Alpha and Beta Diversity Measures (Version 0.2.0) [Computer software]. https://doi.org/10.32614/CRAN.package.abdiv

This is what citation() produces when a package has no citation file of its own. If it prints something else, use that.

Cite the R Observatory

For a number measured here: a download total, a coverage figure, an archival date.

Format

APA

Balamuta, J. J. (2026). R Observatory: Metrics for abdiv version 0.2.0 [Data set]. HJJB, LLC. Data release v2026-08-25. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-25, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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