R Observatory: Metrics for baytaAAR version 1.0.3

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

baytaAAR

1.0.3Package record

Bayesian Transition Analysis with Markov Chain Monte Carlo

0packages depend

1.5Kdownloads / year

78.0%test coverage

13/13flavors OK

Overview

About

Maintained by Nils Müller-ScheeßelCRAN page ↗GitHub ↗Website ↗Issues ↗

Provides Bayesian age estimation for bioarchaeological skeletal data using ordinal probit regression models implemented in 'JAGS' and 'NIMBLE'. The package is designed to handle multiple ordinal traits of adult individuals and incorporates a Gompertz prior on age to reflect population-level mortality. It accounts for estimation uncertainties and supports full customization of model parameters and Markov Chain Monte Carlo settings. For more details see Müller-Scheeßel et al. (2026) doi:10.1002/ajpa.70289.

Install

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

install.packages("baytaAAR", 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("ISAAKiel/baytaAAR")

Development version from ISAAKiel/baytaAAR. 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-baytaaar

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled. We list this channel from recorded r2u download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

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-baytaAAR

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-baytaAAR

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed). We list this channel from recorded autoCRAN download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

Health

CRAN checks

13OK

CRAN check page ↗

Slowest check: 7.7 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-09-08
ERROR12 OK, 1 ERROR2026-09-07
OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK6 OK2026-06-16

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.0.3

READMEYes · 178 wordsVignettesYes · 5 · dynamicNEWSYes · 33% structured · does not mention 1.0.3Citation fileYes · cites a publicationWebsiteYes · pkgdown

Help pages: 17 (4 internal)includes a package overview page
Examples that run: 100%13 run in a plain check (13 of them under a condition)
Exported functions with examples: 100%
Documented parameters: 99%
Return-value docs: 100%
Help pages citing references: 29% with a bibliography file

Vignettes (5)

Introduction to baytaAAR HTML
Computation framework HTML
Data input HTML
Mathematical background HTML
Spitalfields: Comparison with known age-at-death HTML

How these are measured

Downloads

1.5K

CRAN downloads in the past year

Rank #10,416 · ~4/day · ~129/mo

Releases R versions

Daily download trend is not available in this view yet.

33230 days

98890 days

1.5K1 year

Compare downloads with other packages →

Also on37 r2u18 autocran

How downloads are counted

Repository

isaakiel/baytaaar ↗Organization: ISAAKiel

0Stars

0Forks

0Open issues

0Open PRs

1Releases

76Commits

4Commit identities

License file reads as GPL-3.0 · 76 commits · Last activity 2026-06-16

Responsiveness

not measured

Releases over time

2026-06-08 · 12026-07-07 · 1

How these are measured

PracticesBeta

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

Checks run against github.com/isaakiel/baytaaar on 2026-10-22.

Continuous integration (2)

GitHub ActionsR CMD check workflow

The R CMD check workflow runs on Linux, macOS and Windows, and on R-devel

Docs source (3)

pkgdown

GitHub Pages site last deployed 2026-06-16 · The repository has a site deploy workflow

pkgdown site last built 2026-06-16

Coverage (1)

Coverage reporting

Reproducibility and dev environment (1)

data-raw/

Show all practicesHide 2 practices

CRAN release process (1)

cran-comments.md

Lint, format, editor (1)

RStudio project

How this is detected·Detection ruleset v4 (2026-10-20)

Dependencies

Declared dependencies

20 external dependencies (excludes base and recommended)

Installing baytaAAR adds 93 packages (51 with compiled code, 88 MB of source tarballs). Heaviest: stringi 11 MB, ggplot2 6.0 MB, data.table 5.7 MB.

Depends (2)

R >= 4.1.0nimble

Imports (9)

tidyr Rdpack dplyr scoringRules ggpubr flexsurv coda checkmatestats

LinkingTo (0)

none

Suggests (11)

testthat withr knitr rmarkdown ggplot2 gridExtra bayesplot tidybayes rjags runjags ggridges

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

Datasets

People & History

People (2)

Nils Müller-Scheeßel

Christoph Rinne

Author

Releases (1)

1.0.3Latest
record
2026-06-15 · current release
R
R 4.6.0 released · 2026-04-24

Package metadata

First published: 2026-06-15
Total releases: 1 / 1 yrs
License: GPL-3 OSI
Minimum R: ≥ 4.1.0
Bundled data: 1.0 KB / 2 files
Download size: 2.5 MB

Cite

Cite this package

Run in R for the authors' entry:

citation("baytaAAR")

The package provides a citation file, so citation() returns the authors' own entry.

It points to 10.1002/ajpa.70289.

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 baytaAAR version 1.0.3 [Data set]. HJJB, LLC. Data release v2026-10-23. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-23, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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