R Observatory: Metrics for evolved version 1.0.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

evolved

1.0.0

Open Software for Teaching Evolutionary Biology at Multiple Scales Through Virtual Inquiries

0packages depend

6.6Kdownloads / year

8.3%test coverage

13/13checks pass

Overview

About

Maintained by Matheus JanuarioFirst published 2024-11-271 releasesCRAN page ↗GitHub ↗

"Evolutionary Virtual Education" - 'evolved' - provides multiple tools to help educators (especially at the graduate level or in advanced undergraduate level courses) apply inquiry-based learning in general evolution classes. In particular, the tools provided include functions that simulate evolutionary processes (e.g., genetic drift, natural selection within a single locus) or concepts (e.g. Hardy-Weinberg equilibrium, phylogenetic distribution of traits). More than only simulating, the package also provides tools for students to analyze (e.g., measuring, testing, visualizing) datasets with characteristics that are common to many fields related to evolutionary biology. Importantly, the package is heavily oriented towards providing tools for inquiry-based learning - where students follow scientific practices to actively construct knowledge. For additional details, see package's vignettes.

Install

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

install.packages("evolved", 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("Auler-J/evolved")

Development version from Auler-J/evolved. 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-evolved

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-evolved

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

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

Health

CRAN checks

13OK

Slowest check: 3.3 min · r-oldrel-windows-x86_64

Code health

Yes

Tests · ratio 0.01

8.3%

Coverage · measured lines

100%

Documentation · exports

3

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
OK2026-06-09
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-08
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 720 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 93%
Documented parameters: 98%
Return-value docs: 100%
References docs: 65%

Downloads

6.6K

CRAN downloads in the past year

Rank #7,310 · ~18/day · ~553/mo

Releases R versions

Daily download trend is not available in this view yet.

23530 days

1.2K90 days

6.6K1 year

Compare downloads with other packages →

Also on137 r2u

Repository

GitHub ↗ auler-j/evolved

13Stars

0Forks

1Open issues

0Open PRs

2Releases

391Commits

2Contributors

biodiversity-sciencecomparative-methodsevolutionary-biologymacroevolutionpaleobiologyphylogeneticspopulation-geneticsscience-education

License GPL-3.0 · 391 commits · Last activity 2026-04-01 · 0% stars, 30d

Stars over time

2025-06-23 · 62026-07-07 · 13

Repository practices

Upstream repositoryBeta

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

Checks run against github.com/auler-j/evolved on 2026-08-16.

Continuous integration (1)

GitHub Actions

Reproducibility and dev environment (1)

data-raw/

CRAN release process (2)

cran-comments.mdrevdep/

Docs source (1)

README.Rmd

Show all practices

Research and citation (2)

CITATION.cffZenodo

Lint, format, editor (1)

RStudio project

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

Dependencies

Declared dependencies

10 external dependencies (excludes base and recommended)

Depends (1)

R >= 2.10

Imports (3)

ape diversitree phytools

LinkingTo (0)

none

Suggests (7)

knitr rmarkdown testthat LSD paleobioDB BAMMtools plot3D

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (4)

Maintainer (1)

Matheus Januario

Author, Copyright holder, Maintainer

Authors (4)

Matheus Januario

Author, Copyright holder, Maintainer

Jennifer Auler

Author

Daniel Rabosky

Author

Andressa Viol

Author

Copyright holders (1)

Matheus Januario

Author, Copyright holder, Maintainer

Package Timeline

1 release. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
1.0.0Latest
2026-03-10 · current release
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2024-11-27
Total releases: 1 / 2 yrs
License: GPL (>= 3) OSI
Minimum R: ≥ 2.10
Bundled data: 280 KB / 6 files
Download size: 3.8 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("evolved")

The authors publish a CITATION.cff, so they have said how they want this cited. Run citation() and use what it gives you.

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 evolved version 1.0.0 [Data set]. HJJB, LLC. Data release v2026-08-18. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-18, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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