R Observatory: Metrics for glmmPen version 1.5.4.8

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

glmmPen

1.5.4.8

High Dimensional Penalized Generalized Linear Mixed Models (pGLMM)

0packages depend

4Kdownloads / year

6.5%test coverage

11/13checks pass

Overview

About

Maintained by Hillary HeilingFirst published 2022-01-217 releasesCRAN page ↗

Fits high dimensional penalized generalized linear mixed models using the Monte Carlo Expectation Conditional Minimization (MCECM) algorithm. The purpose of the package is to perform variable selection on both the fixed and random effects simultaneously for generalized linear mixed models. The package supports fitting of Binomial, Gaussian, and Poisson data with canonical links, and supports penalization using the MCP, SCAD, or LASSO penalties. The MCECM algorithm is described in Rashid et al. (2020) doi:10.1080/01621459.2019.1671197. The techniques used in the minimization portion of the procedure (the M-step) are derived from the procedures of the 'ncvreg' package (Breheny and Huang (2011) doi:10.1214/10-AOAS388) and 'grpreg' package (Breheny and Huang (2015) doi:10.1007/s11222-013-9424-2), with appropriate modifications to account for the estimation and penalization of the random effects. The 'ncvreg' and 'grpreg' packages also describe the MCP, SCAD, and LASSO penalties.

Install

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

install.packages("glmmPen", 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-glmmpen

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-glmmPen

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-glmmPen

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

Health

CRAN checks

2NOTE11OK

Failing flavors

NOTE r-devel-linux-x86_64-fedora-clang
NOTE r-devel-linux-x86_64-fedora-gcc

Slowest check: 16.5 min · r-oldrel-windows-x86_64

Code health

Yes

Tests · ratio 0.02

6.5%

Coverage · measured lines

100%

Documentation · exports

15

Dependencies · direct

Check history

NOTE2026-07-29
11 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-07-27
10 OK · 2 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
NOTE2026-04-22
9 OK · 5 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-04-18
8 OK · 5 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
NOTE2026-03-10
9 OK · 5 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 421 wordsVignettesNopkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: not tracked
Documented parameters: 95%
Return-value docs: 88%
References docs: 0%

Downloads

4K

CRAN downloads in the past year

Rank #9,550 · ~11/day · ~335/mo

Releases R versions

Daily download trend is not available in this view yet.

21930 days

98790 days

4K1 year

Compare downloads with other packages →

Also on388 r2u20 autocran

Dependencies

Declared dependencies

22 external dependencies (excludes base and recommended)

Depends (4)

R >= 3.6.0lme4 bigmemory Rcpp

Imports (12)

ggplot2Matrixmethodsncvreg reshape2 rstan stringr mvtnormMASSsurvivalrstantools RcppParallel (>= 5.0.1)

LinkingTo (8)

BH bigmemory Rcpp RcppArmadillo RcppEigen rstan StanHeaders (>= 2.18.0)RcppParallel

Suggests (3)

testthat knitr rmarkdown

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (4)

Maintainer (1)

Hillary Heiling

Author, Maintainer

Authors (4)

Hillary Heiling

Author, Maintainer

Joseph Ibrahim

Author · added in 1.5.3.0

Quefeng Li

Author

Naim Rashid

Author

Package Timeline

7 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
1.5.4.8Latest
2024-08-29 · current release · diff ↗
R
R 4.4.0 released · 2024-04-24
1.5.4.4
2024-01-18 · diff ↗
R
R 4.3.0 released · 2023-04-21
1.5.3.4
2023-04-03 · diff ↗
1.5.3.0
2023-03-15 · diff ↗
1.5.2.11
2022-12-13 · diff ↗
1.5.1.10
2022-04-29 · diff ↗
R
R 4.2.0 released · 2022-04-22
1.5.1.8
2022-01-21
R
R 4.1.0 released · 2021-05-18

Package metadata

First published: 2022-01-21
Total releases: 7 / 4 yrs
License: GPL (>= 2) OSI
Minimum R: ≥ 3.6.0
Bundled data: 83 KB / 1 file
Download size: 465 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("glmmPen")

Format

Heiling, H., Ibrahim, J., Li, Q., & Rashid, N. (2024). glmmPen: High Dimensional Penalized Generalized Linear Mixed Models (pGLMM) (Version 1.5.4.8) [Computer software]. https://doi.org/10.32614/CRAN.package.glmmPen

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 glmmPen version 1.5.4.8 [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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