R Observatory: Metrics for divDyn version 0.8.3

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

divDyn

0.8.3

Diversity Dynamics using Fossil Sampling Data

2packages depend

8.4Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Adam T. KocsisFirst published 2018-10-087 releasesCRAN page ↗GitHub ↗

Functions to describe sampling and diversity dynamics of fossil occurrence datasets (e.g. from the Paleobiology Database). The package includes methods to calculate range- and occurrence-based metrics of taxonomic richness, extinction and origination rates, along with traditional sampling measures. A powerful subsampling tool is also included that implements frequently used sampling standardization methods in a multiple bin-framework. The plotting of time series and the occurrence data can be simplified by the functions incorporated in the package, as well as other calculations, such as environmental affinities and extinction selectivity testing. Details can be found in: Kocsis, A.T.; Reddin, C.J.; Alroy, J. and Kiessling, W. (2019) doi:10.1101/423780.

Install

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

install.packages("divDyn", 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("divDyn/r-package")

Development version from divDyn/r-package. 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-divdyn

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-divDyn

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-divDyn

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

Health

CRAN checks

13OK

Slowest check: 9.8 min · r-devel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

5

Dependencies · direct

Check history

OK2026-08-05
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-08-01
12 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-04-25
12 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-03-30
13 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 385 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 100%
Return-value docs: 100%
References docs: 0%

Downloads

8.4K

CRAN downloads in the past year

Rank #6,235 · ~23/day · ~697/mo

Releases R versions

Daily download trend is not available in this view yet.

31430 days

1.3K90 days

8.4K1 year

Compare downloads with other packages →

Also on404 r2u23 autocran

Repository

GitHub ↗ divdyn/r-package

12Stars

1Forks

0Open issues

0Open PRs

2Releases

293Commits

2Contributors

r-packagediversityextinctionoriginationfossil-dataoccurrencespaleobiology

License GPL-3.0 · 293 commits · Last activity 2025-12-01

Stars over time

2025-07-15 · 122026-07-07 · 12

Repository practices

Upstream repositoryBeta

1 development-tooling and community-health practice detected across 1 family in the upstream repository

Checks run against github.com/divdyn/r-package on 2026-08-16.

Docs source (1)

README.Rmd

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

Dependencies

Declared dependencies

6 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.5.0

Imports (5)

RcppstatsgraphicsgrDevicesmethods

LinkingTo (1)

Rcpp

Suggests (4)

knitr rmarkdown vegan icosa

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

2direct

0indirect

deeptime paleoDiv

Code & Tests

Datasets

People & History

People (6)

Maintainer (1)

Adam T. Kocsis

Maintainer, Author

Authors (4)

Maintainer, Author

Author

Author

Author

Funders (2)

Deutsche Forschungsgemeinschaft

Funder · added in 0.8.3

FAU GeoZentrum Nordbayern

Funder · added in 0.8.3

Package Timeline

7 releases. Pick two to compare their code metrics. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
0.8.3Latest
2024-11-21 · current release · diff ↗
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
0.8.2
2022-09-05 · diff ↗
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
0.8.1
2021-03-02 · diff ↗
unarchivedReturned to CRAN
2021-03-02
archivedRemoved from CRAN
2021-02-24
check problems were not corrected in time Use of deprecated/defunct C++
R
R 4.0.0 released · 2020-04-24
0.8.0
2019-06-12 · diff ↗
R
R 3.6.0 released · 2019-04-26
0.7.1
2019-02-19 · diff ↗
0.7.0
2019-01-08 · diff ↗

Show 2 earlier events

0.6.1
2018-10-08
R
R 3.5.0 released · 2018-04-23

Package metadata

First published: 2018-10-08
Total releases: 7 / 8 yrs
License: CC BY 4.0
Minimum R: ≥ 3.5.0
Bundled data: 374 KB / 6 files
Download size: 1.4 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Appears in task views

Paleontology

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("divDyn")

Format

Kocsis, A. T., Deutsche Forschungsgemeinschaft, FAU GeoZentrum Nordbayern, Alroy, J., Kiessling, W., & Reddin, C. J. (2024). divDyn: Diversity Dynamics using Fossil Sampling Data (Version 0.8.3) [Computer software]. https://doi.org/10.32614/CRAN.package.divDyn

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 divDyn version 0.8.3 [Data set]. HJJB, LLC. Data release v2026-08-22. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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