R Observatory: Metrics for netgwas version 1.14.5

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

netgwas

1.14.5

Network-Based Genome Wide Association Studies

0packages depend

1Kdownloads / year

51.9%test coverage

8/13checks pass

Overview

About

Maintained by Pariya BehrouziFirst published 2026-05-0420 releasesCRAN page ↗

A multi-core R package that contains a set of tools based on copula graphical models for accomplishing the three interrelated goals in genetics and genomics in an unified way: (1) linkage map construction, (2) constructing linkage disequilibrium networks, and (3) exploring high-dimensional genotype-phenotype network and genotype- phenotype-environment interactions networks. The 'netgwas' package can deal with biparental inbreeding and outbreeding species with any ploidy level, namely diploid (2 sets of chromosomes), triploid (3 sets of chromosomes), tetraploid (4 sets of chromosomes) and so on. We target on high-dimensional data where number of variables p is considerably larger than number of sample sizes (p >> n). The computations is memory-optimized using the sparse matrix output. The 'netgwas' implements the methodological developments in Behrouzi and Wit (2017) doi:10.1111/rssc.12287 and Behrouzi and Wit (2017) doi:10.1093/bioinformatics/bty777.

Install

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

install.packages("netgwas", 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-netgwas

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

# 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-netgwas

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

Health

CRAN checks

5NOTE8OK

Failing flavors

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

Slowest check: 3.4 min · r-oldrel-macos-x86_64

Code health

Yes

Tests · ratio 0.06

51.9%

Coverage · measured lines

100%

Documentation · exports

9

Dependencies · direct

Check history

NOTE2026-08-20
8 OK · 5 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-08-18
8 OK · 4 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
NOTE2026-08-06
8 OK · 5 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-08-04
7 OK · 5 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
NOTE2026-07-16
11 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Show 1 earlier snapshots

OK2026-05-05
7 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMENoVignettesNopkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 45%
Documented parameters: 99%
Return-value docs: 100%
References docs: 68%

Downloads

1K

CRAN downloads in the past year

Rank #13,970 · ~3/day · ~86/mo

Releases R versions

Daily download trend is not available in this view yet.

19230 days

73090 days

1K1 year

Compare downloads with other packages →

Also on121 r2u26 autocran

Dependencies

Declared dependencies

6 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.1.0

Imports (9)

Matrixigraph qtlparallelmethodsglassoMASShuge tmvtnorm

LinkingTo (0)

none

Suggests (1)

testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (2)

Maintainer (1)

Pariya Behrouzi

Author, Maintainer

Authors (1)

Pariya Behrouzi

Author, Maintainer

Contributors (1)

Ernst C. Wit

Contributor

Package Timeline

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

1.14.5Latest
2026-05-04 · current release · diff ↗
unarchivedReturned to CRAN
2026-05-04
R
R 4.6.0 released · 2026-04-24
archivedRemoved from CRAN
2026-02-01
requires archived package 'huge'
1.14.4
2025-11-10 · diff ↗
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
1.14.3
2024-03-19 · diff ↗
1.14.2
2023-08-07 · diff ↗
R
R 4.3.0 released · 2023-04-21
1.14.1
2022-08-25 · diff ↗
1.14
2022-08-17 · diff ↗
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
1.13
2020-11-17 · diff ↗
1.12
2020-10-21 · diff ↗

Show 16 earlier events

R
R 4.0.0 released · 2020-04-24
1.11
2019-10-15 · diff ↗
R
R 3.6.0 released · 2019-04-26
1.10
2019-04-12 · diff ↗
1.9
2019-03-26 · diff ↗
1.8.1
2019-02-16 · diff ↗
1.7.0
2018-08-13 · diff ↗
1.5.0
2018-05-16 · diff ↗
R
R 3.5.0 released · 2018-04-23
0.1.4.2
2018-04-06 · diff ↗
0.1.3.2
2018-03-13 · diff ↗
0.1.3.1
2018-02-07 · diff ↗
0.1.3.0
2018-02-07 · diff ↗
0.1.2.0
2018-01-12 · diff ↗
0.0.1-1
2017-12-01
R
R 3.4.0 released · 2017-04-21

Package metadata

First published: 2026-05-04
Total releases: 20 / 1 yrs
License: GPL-3 OSI
Minimum R: ≥ 3.1.0
Bundled data: 131 KB / 3 files
Download size: 171 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("netgwas")

Format

Behrouzi, P., & C. Wit, E. (2026). netgwas: Network-Based Genome Wide Association Studies (Version 1.14.5) [Computer software]. https://doi.org/10.32614/CRAN.package.netgwas

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 netgwas version 1.14.5 [Data set]. HJJB, LLC. Data release v2026-08-21. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-21, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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