R Observatory: Metrics for baygel version 0.3.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

baygel

0.3.0

Bayesian Shrinkage Estimators for Precision Matrices in Gaussian Graphical Models

0packages depend

2.7Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Jarod SmithFirst published 2023-01-303 releasesCRAN page ↗GitHub ↗

This R package offers block Gibbs samplers for the Bayesian (adaptive) graphical lasso, ridge, and naive elastic net priors. These samplers facilitate the simulation of the posterior distribution of precision matrices for Gaussian distributed data and were originally proposed by: Wang (2012) doi:10.1214/12-BA729; Smith et al. (2022) doi:10.48550/arXiv.2210.16290 and Smith et al. (2023) doi:10.48550/arXiv.2306.14199, respectively.

Install

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

install.packages("baygel", 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("Jarod-Smithy/baygel")

Development version from Jarod-Smithy/baygel. 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-baygel

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-baygel

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-baygel

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

Health

CRAN checks

13OK

Slowest check: 4.3 min · r-devel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

2

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
NOTE2026-04-22
12 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-04-18
11 OK · 2 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE

Show 3 earlier snapshots

NOTE2026-04-10
12 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-04-09
11 OK · 2 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
NOTE2026-03-10
12 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMENoVignettesNopkgdown siteNoNEWSNoCode of conductNoContributing guideNo

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

Downloads

2.7K

CRAN downloads in the past year

Rank #13,704 · ~7/day · ~221/mo

Releases R versions

Daily download trend is not available in this view yet.

20130 days

74490 days

2.7K1 year

Compare downloads with other packages →

Also on394 r2u41 autocran

Repository

GitHub ↗ jarod-smithy/baygel

1Stars

0Forks

0Open issues

0Open PRs

1Releases

24Commits

2Contributors

24 commits · Last activity 2023-11-12

Stars over time

2025-05-14 · 12026-07-07 · 1

Repository practices

Upstream repositoryBeta

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

Checks run against github.com/jarod-smithy/baygel on 2026-08-16.

Continuous integration (1)

GitHub Actions

CRAN release process (2)

cran-comments.mdCRAN-SUBMISSION

Docs source (1)

README.Rmd

Automation and maintenance (1)

pre-commit

Show all practices

Lint, format, editor (2)

lintrRStudio project

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

Dependencies

Declared dependencies

6 external dependencies (excludes base and recommended)

Depends (0)

none

Imports (2)

Rcpp RcppArmadillo

LinkingTo (3)

Rcpp RcppArmadillo RcppProgress

Suggests (2)

MASSpracma

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (3)

Maintainer (1)

Jarod Smith

Author, Maintainer

Authors (3)

Jarod Smith

Author, Maintainer

Mohammad Arashi

Author

Andriette Bekker

Author

Package Timeline

3 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
0.3.0Latest
2023-11-11 · current release · diff ↗
0.2.0
2023-07-08 · diff ↗
R
R 4.3.0 released · 2023-04-21
0.1.0
2023-01-30
R
R 4.2.0 released · 2022-04-22

Package metadata

First published: 2023-01-30
Total releases: 3 / 3 yrs
License: GPL (>= 3) OSI
Download size: 9.0 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("baygel")

Format

Smith, J., Arashi, M., & Bekker, A. (2023). baygel: Bayesian Shrinkage Estimators for Precision Matrices in Gaussian Graphical Models (Version 0.3.0) [Computer software]. https://doi.org/10.32614/CRAN.package.baygel

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 baygel version 0.3.0 [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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