R Observatory: Metrics for shrinkem version 0.4.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

shrinkem

0.4.0Package record

Approximate Bayesian Regularization for Parsimonious Estimates

0packages dependsuggested by 2

2.4Kdownloads / year

78.3%test coverage

13/13flavors OK

Overview

About

Maintained by Joris MulderCRAN page ↗

Approximate Bayesian regularization using Gaussian approximations. The input is a vector of estimates and a Gaussian error covariance matrix of the key parameters. Bayesian shrinkage is then applied to obtain parsimonious solutions. The method is described on Karimova, van Erp, Leenders, and Mulder (2025) DOI:10.1016/j.jmp.2025.102925. Gibbs samplers are used for model fitting. The shrinkage priors that are supported are Gaussian (ridge) priors, Laplace (lasso) priors (Park and Casella, 2008 DOI:10.1198/016214508000000337), and horseshoe priors (Carvalho, et al., 2010; DOI:10.1093/biomet/asq017). These priors include an option for grouped regularization of different subsets of parameters (Meier et al., 2008; DOI:10.1111/j.1467-9868.2007.00627.x). F priors are used for the penalty parameters lambda^2 (Mulder and Pericchi, 2018 DOI:10.1214/17-BA1092). This correspond to half-Cauchy priors on lambda (Carvalho, Polson, Scott, 2010 DOI:10.1093/biomet/asq017).

Install

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

install.packages("shrinkem", repos = "https://cloud.r-project.org/")

Installs the current CRAN release. Prebuilt binaries on Windows and macOS.

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-shrinkem

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-shrinkem

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-shrinkem

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: 3.1 min · r-devel-windows-x86_64

Status changes

OK13 OK2026-08-04
NOTE12 OK, 1 NOTE2026-08-01
OK13 OK2026-06-09
ERROR12 OK, 1 ERROR2026-06-08
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.4.0

READMEYes · 133 wordsVignettesNoNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 3
Examples that run: 67%2 run in a plain check · 1 only when donttest examples are enabled (R CMD check --as-cran)
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 100%

How these are measured

Downloads

2.4K

CRAN downloads in the past year

Rank #16,494 · ~7/day · ~201/mo

Releases R versions

Daily download trend is not available in this view yet.

22230 days

77090 days

2.4K1 year

Compare downloads with other packages →

Also on138 r2u

How downloads are counted

Dependencies

Declared dependencies

8 external dependencies (excludes base and recommended)

Installing shrinkem adds 6 packages (5 with compiled code, 3.1 MB of source tarballs). Heaviest: Rcpp 1.8 MB, RcppArmadillo 1.0 MB, extraDistr 146 KB.

Depends (0)

none

Imports (6)

RcppstatsextraDistr CholWishart matrixcalc logspline

LinkingTo (2)

Rcpp RcppArmadillo

Suggests (1)

tinytest

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Suggested by 2

Suggests, most downloaded first

remstimate remverse

How these are counted

Code & Tests

People & History

People (4)

Joris Mulder

Author, Maintainer since 0.2.0 (2024)

Diana Karimova

Author, Contributor

Roger Leenders

Contributor · added in 0.3.0

Sara van Erp

Contributor

Listed in earlier versions (1)

Mulder

no longer listed · 0.2.0 to 0.4.0

Releases (3)

Pick two releases to compare their code metrics.

0.4.0Latest
record
2026-07-15 · current release · diff ↗
0.3.0
record
2026-06-10 · diff ↗
R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
0.2.0
record
2024-10-05
R
R 4.4.0 released · 2024-04-24

Package metadata

First published: 2024-10-05
Total releases: 3 / 2 yrs
License: GPL (>= 3) OSI
Download size: 14 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("shrinkem")

Format

Mulder, J., Karimova, D., Leenders, R., & van Erp, S. (2026). shrinkem: Approximate Bayesian Regularization for Parsimonious Estimates (Version 0.4.0) [Computer software]. https://doi.org/10.32614/CRAN.package.shrinkem

This package has no citation file, so citation() returns this entry built from DESCRIPTION.

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 shrinkem version 0.4.0 [Data set]. HJJB, LLC. Data release v2026-10-26. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-26, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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