R Observatory: Metrics for beautier version 2.6.12

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

beautier

2.6.12

'BEAUti' from R

6packages depend

8.3Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Richèl J.C. BilderbeekFirst published 2018-03-2715 releasesCRAN page ↗GitHub ↗

'BEAST2' (https://www.beast2.org) is a widely used Bayesian phylogenetic tool, that uses DNA/RNA/protein data and many model priors to create a posterior of jointly estimated phylogenies and parameters. 'BEAUti 2' (which is part of 'BEAST2') is a GUI tool that allows users to specify the many possible setups and generates the XML file 'BEAST2' needs to run. This package provides a way to create 'BEAST2' input files without active user input, but using R function calls instead.

Install

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

install.packages("beautier", 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("ropensci/beautier")

Development version from ropensci/beautier. 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-beautier

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-beautier

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-beautier

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

Health

CRAN checks

13OK

Slowest check: 4.9 min · r-oldrel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

6

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
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMENoVignettesYes · dynamicpkgdown siteNoNEWSNoCode of conductNoContributing guideNo

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

Downloads

8.3K

CRAN downloads in the past year

Rank #5,557 · ~23/day · ~690/mo

Releases R versions

Daily download trend is not available in this view yet.

38630 days

1.4K90 days

8.3K1 year

Compare downloads with other packages →

Also on194 r2u52 autocran30 c2d4u

Repository

GitHub ↗ ropensci/beautier

14Stars

4Forks

11Open issues

0Open PRs

54Releases

3,025Commits

4Contributors

rr-packagerstatsbayesianbeastbeast2phylogenetic-inferencephylogenetics

License GPL-3.0 · 3,025 commits · Last activity 2025-12-08 · +7.7% stars, 30d

Stars over time

2023-11-02 · 132026-07-29 · 14

Repository practices

Upstream repositoryBeta

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

Checks run against github.com/ropensci/beautier on 2026-08-16.

Continuous integration (1)

GitHub Actions

CRAN release process (2)

cran-comments.mdCRAN-SUBMISSION

Research and citation (2)

CITATION.cffcodemeta.json

Lint, format, editor (1)

RStudio project

Show all practices

Coverage (1)

Codecov

Governance and community (1)

Issue templates

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

Dependencies

Declared dependencies

11 external dependencies (excludes base and recommended)

Depends (0)

none

Imports (6)

ape rappdirs purrr rlang seqinr stringr

LinkingTo (0)

none

Suggests (5)

knitr markdown readr rmarkdown testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

6direct

1indirect

babette beastier mcbette nodeSub mauricer mhcnuggetsr

Code & Tests

Datasets

People & History

People (13)

Maintainer (1)

Richèl J.C. Bilderbeek

Author, Maintainer · added in 2.2.1

Authors (1)

Richèl J.C. Bilderbeek

Author, Maintainer · added in 2.2.1

Contributors (10)

Yacine B. Chehida

Contributor · added in 2.2.1

Jason Griffiths

Contributor · added in 2.5.2

Thijs Janzen

Contributor · added in 2.5.2

Gary Napier

Contributor · added in 2.5.2

Jana Riederer

Contributor · added in 2.2.1

Olivier Roy

Contributor · added in 2.6.11

Raphael Scherrer

Contributor · added in 2.2.1

Pedro Taucce

Contributor · added in 2.6.9

Show 2 more contributors

Paul Van Els

Contributor · added in 2.2.1

Katharine S. Walter

Contributor · added in 2.3.6

Reviewers (2)

Joëlle Barido-Sottani

Reviewer · added in 2.2.1

David Winter

Reviewer · added in 2.2.1

Listed in earlier versions (1)

Richel J.C. Bilderbeek

no longer listed · 1.13

Package Timeline

15 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
R
R 4.4.0 released · 2024-04-24
2.6.12Latest
2024-04-01 · current release · diff ↗
2.6.11
2023-11-02 · diff ↗
unarchivedReturned to CRAN
2023-11-02
archivedRemoved from CRAN
2023-10-24
requires archived package 'assertive'
2.6.9
2023-09-24 · diff ↗
R
R 4.3.0 released · 2023-04-21
2.6.5
2022-08-11 · diff ↗
unarchivedReturned to CRAN
2022-08-11
archivedRemoved from CRAN
2022-08-08
issues were not corrected in time
2.6.4
2022-06-05 · diff ↗
R
R 4.2.0 released · 2022-04-22
2.6.2
2021-07-25 · diff ↗
unarchivedReturned to CRAN
2021-07-25

Show 19 earlier events

archivedRemoved from CRAN
2021-07-13
requires archived package 'beastier'
2.6
2021-05-23 · diff ↗
2.5.2
2021-05-22 · diff ↗
R
R 4.1.0 released · 2021-05-18
2.4
2020-10-16 · diff ↗
2.3.7
2020-08-05 · diff ↗
unarchivedReturned to CRAN
2020-08-05
archivedRemoved from CRAN
2020-07-31
required archived package 'assertive'
2.3.6
2020-05-06 · diff ↗
R
R 4.0.0 released · 2020-04-24
2.3.5
2020-02-25 · diff ↗
2.3.2
2019-12-01 · diff ↗
R
R 3.6.0 released · 2019-04-26
2.2.1
2019-03-01 · diff ↗
unarchivedReturned to CRAN
2019-03-01
R
R 3.5.0 released · 2018-04-23
archivedRemoved from CRAN
2018-03-28
policy violation Checking creates '{created,expected}.xml' in home
1.13
2018-03-27
R
R 3.4.0 released · 2017-04-21

Package metadata

First published: 2018-03-27
Total releases: 15 / 8 yrs
License: GPL-3 OSI
Download size: 1.5 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Appears in task views

Phylogenetics

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("beautier")

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 beautier version 2.6.12 [Data set]. HJJB, LLC. Data release v2026-08-21. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-21, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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