GGMncv

2.1.2

Gaussian Graphical Models with Nonconvex Regularization

0packages depend

1Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Philippe RastFirst published 2026-05-056 releasesCRAN page ↗GitHub ↗

Estimate Gaussian graphical models with nonconvex penalties, including methods described by Williams (2020) doi:10.31234/osf.io/ad57p. Penalties include atan (Wang and Zhu, 2016) doi:10.1155/2016/6495417, seamless L0 (Dicker, Huang and Lin, 2013) doi:10.5705/ss.2011.074, exponential (Wang, Fan and Zhu, 2018) doi:10.1007/s10463-016-0588-3, smooth integration of counting and absolute deviation (Lv and Fan, 2009) doi:10.1214/09-AOS683, logarithm (Mazumder, Friedman and Hastie, 2011) doi:10.1198/jasa.2011.tm09738, Lq, smoothly clipped absolute deviation (Fan and Li, 2001) doi:10.1198/016214501753382273, and minimax concave penalty (Zhang, 2010) doi:10.1214/09-AOS729. The package also provides extensions for variable inclusion probabilities, multiple regression coefficients, and statistical inference (Janková and van de Geer, 2015) doi:10.1214/15-EJS1031.

Install

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

install.packages("GGMncv", 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("rast-lab/GGMncv")

Development version from rast-lab/GGMncv. 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-ggmncv

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-GGMncv

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-GGMncv

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

Health

CRAN checks

13OK

Slowest check: 4.0 min · r-devel-linux-x86_64-fedora-clang

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

Dependencies · direct

Check history

OK2026-06-09
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-08
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-05-05
6 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 3,148 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 67% structuredCode of conductNoContributing guideNo

Examples that run: 48%
Documented parameters: 97%
Return-value docs: 100%
References docs: 57%

Downloads

CRAN downloads in the past year

Rank #11,275 · ~3/day · ~86/mo

Releases R versions

Daily download trend is not available in this view yet.

26030 days

94690 days

1K1 year

Compare downloads with other packages →

Also on445 r2u30 autocran

Repository

GitHub ↗ rast-lab/ggmncv

2Stars

0Forks

0Open issues

0Open PRs

0Releases

236Commits

2Contributors

License GPL-2.0 · 236 commits · Last activity 2026-05-09 · +100% stars, 30d

Stars over time

2026-05-05 · 12026-07-07 · 2

Repository practices

Upstream repositoryBeta

5 development-tooling and community-health practices detected across 4 families in the upstream repository

Checks run against github.com/rast-lab/ggmncv on 2026-07-19.

Continuous integration (2)

GitHub ActionsTravis CI

CRAN release process (1)

cran-comments.md

Docs source (1)

README.Rmd

Git structural (1)

.gitattributes

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

Dependencies

Declared dependencies

23 external dependencies (excludes base and recommended)

Depends (1)

R >= 4.0.0

Imports (16)

Rcpp Rdpack reshape GGally (>= 1.4.0)ggplot2 glassoFast network (>= 1.15)numDeriv mathjaxr MASS (>= 7.3-51.5)methodsparallelpbapply snastatsutils

LinkingTo (2)

Rcpp RcppArmadillo

Suggests (9)

car corpcor corrplot dplyr NetworkToolbox NetworkComparisonTest nlshrink rmarkdown knitr

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Code Composition

R 4,031 (58%)Rd 1,961 (28%)Vignettes 849 (12%)C++ 121 (2%)

Code characteristics

Object systems

S311

Cyclomatic complexity: 1.0 median / 49 max

Test coverage

Line coverage

–

Expression

–

Tests / Examples

–

Functions

62 15 exported

Complexity

3.2 avg / 49 max

Call network

62 nodes / 24 edges

Call graph

Open call graph →

Loading call graph…

Lowest coverage

Per-function coverage is not measured for this package yet.

Datasets

Bundled datasets · 3

Name	Class	Rows × Cols	Also ships in
Sachs	data.frame	7,466 × 11	in 3 packages
bfi	data.frame	2,800 × 27	in 3 packages
ptsd	data.frame	221 × 20	–

People & History

People (2)

Maintainer (1)

Philippe Rast

Maintainer · added in 2.1.2

Authors (1)

Donald Williams

Author

Package Timeline

6 releases. Pick two to compare their code metrics. R releases are shown for context.

2.1.2Latest
2026-05-05 · current release · diff ↗
unarchivedReturned to CRAN
2026-05-04
R
R 4.6.0 released · 2026-04-24
archivedRemoved from CRAN
2025-06-12
issues were not corrected despite reminders
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
R
R 4.2.0 released · 2022-04-22
2.1.1
2021-12-15 · diff ↗
2.1.0
2021-12-14 · diff ↗
R
R 4.1.0 released · 2021-05-18
2.0.0
2020-11-16 · diff ↗
unarchivedReturned to CRAN
2020-11-16
archivedRemoved from CRAN
2020-10-20
problems were not corrected in time
1.1.0
2020-07-11 · diff ↗
1.0.0
2020-07-06

Show 1 earlier events

R
R 4.0.0 released · 2020-04-24

Package metadata

First published: 2026-05-05
Total releases: 6 / 1 yrs
License: GPL-2 OSI
Minimum R: ≥ 4.0.0
Bundled data: 140 KB / 3 files
Download size: not tracked yet
Installed size: not tracked yet
With dependencies: not tracked yet

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