R Observatory: Metrics for statgenGxE version 1.0.11

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

statgenGxE

1.0.11Package record

Genotype by Environment (GxE) Analysis

0packages depend

5.6Kdownloads / year

79.0%test coverage

13/13flavors OK

Overview

About

Maintained by Bart-Jan van RossumCRAN page ↗GitHub ↗Website ↗Issues ↗

Analysis of multi environment data of plant breeding experiments following the analyses described in Malosetti, Ribaut, and van Eeuwijk (2013), doi:10.3389/fphys.2013.00044. One of a series of statistical genetic packages for streamlining the analysis of typical plant breeding experiments developed by Biometris. Some functions have been created to be used in conjunction with the R package 'asreml' for the 'ASReml' software, which can be obtained upon purchase from 'VSN' international (https://vsni.co.uk/software/asreml-r/).

Changes in 1.0.11

The method for making predictions from the output of gxeVarComp has been improved. When lme4 is used for fitting variance component models the predictions for unbalanced data are more accurate now.

From NEWS.md in the release

Install

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

install.packages("statgenGxE", 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("Biometris/statgenGxE")

Development version from Biometris/statgenGxE. 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-statgengxe

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-statgenGxE

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-statgenGxE

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: 5.4 min · r-release-macos-x86_64

Status changes

OK13 OK2026-08-04
NOTE12 OK, 1 NOTE2026-08-01
OK12 OK2026-04-25
NOTE11 OK, 3 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.0.11

READMEYes · 120 wordsVignettesYes · 1 · evaluation depends on the environmentNEWSYes · 100% structured · mentions 1.0.11Citation fileNoWebsiteYes · pkgdown

Help pages: 41 (8 internal)includes a package overview page
Examples that run: 86%24 run in a plain check · 4 only when donttest examples are enabled (R CMD check --as-cran)
Exported functions with examples: 71%
Documented parameters: 100%
Return-value docs: 71%
Help pages citing references: 22%

Vignettes (1)

Genotype by Environment analysis using statgenGxE

How these are measured

Downloads

5.6K

CRAN downloads in the past year

Rank #6,949 · ~15/day · ~464/mo

Releases R versions

Daily download trend is not available in this view yet.

42430 days

1.2K90 days

5.6K1 year

Compare downloads with other packages →

Also on120 r2u7 autocran92 c2d4u

How downloads are counted

Repository

biometris/statgengxe ↗Organization: Biometris

13Stars

8Forks

0Open issues

0Open PRs

0Releases

996Commits

3Commit identities

geneticsmulti-trial-analysisgxe-modellinggxecranr-package

996 commits · Last activity 2025-11-12 · 0% stars, 30d

Responsiveness

How these are sampled

PRs merged (all time): 0%
Median days to close, 50 most recently updated closed issues: 11
Median days to close, 50 most recently updated closed PRs: 58

Stars over time

2025-08-20 · 112026-07-07 · 13

How these are measured

PracticesBeta

11 development-tooling and community-health practices detected across 6 families in the upstream repository

Checks run against github.com/biometris/statgengxe on 2026-10-18.

Continuous integration (3)

GitHub ActionsR CMD check workflowGitLab CI

The R CMD check workflow runs on Linux, macOS and Windows, and on R-devel

Docs source (4)

README.Rmdpkgdown

GitHub Pages site last deployed 2025-11-12 · The repository has a site deploy workflow

Coverage (1)

Coverage reporting

Reproducibility and dev environment (1)

data-raw/

Show all practicesHide 2 practices

CRAN release process (1)

cran-comments.md

Lint, format, editor (1)

RStudio project

How this is detected·Detection ruleset v3 (2026-09-26)

Dependencies

Declared dependencies

11 external dependencies (excludes base and recommended)

Installing statgenGxE adds 46 packages (24 with compiled code, 52 MB of source tarballs). Heaviest: ggplot2 6.0 MB, data.table 5.7 MB, qtl 4.2 MB.

Depends (1)

R >= 3.3

Imports (9)

emmeans ggplot2 gridExtra knitr lme4methodsrlang statgenSTA xtable

LinkingTo (0)

none

Suggests (3)

asreml rmarkdown testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

Datasets

People & History

People (13)

Bart-Jan van Rossum

Author, Maintainer since 1.0.2 (2020)

Martin Boer

Contributor

Daniela Bustos-Korts

Contributor

Rameau Jean-Francois

Contributor · added in 1.0.11

Willem Kruijer

Contributor

Marcos Malosetti

Contributor

Turbet Delof Michel

Contributor · added in 1.0.11

Emilie J Millet

Contributor

Joao Paulo

Contributor

Show 4 more contributorsHide 4 contributors

Contributor

Contributor

Contributor

Contributor

Releases (10)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
1.0.11Latest
record
2025-11-12 · current release · diff ↗
1.0.10
record
2025-06-24 · diff ↗
R
R 4.5.0 released · 2025-04-11
1.0.9
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2024-09-18 · diff ↗
1.0.8
record
2024-05-06 · diff ↗
R
R 4.4.0 released · 2024-04-24
1.0.7
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2024-03-19 · diff ↗
1.0.6
record
2023-12-12 · diff ↗
R
R 4.3.0 released · 2023-04-21
1.0.5
record
2022-08-11 · diff ↗
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
1.0.4
record
2021-01-07 · diff ↗
1.0.3
record
2020-11-09 · diff ↗
1.0.2
record
2020-10-01

Show 1 earlier eventHide 1 earlier event

R
R 4.0.0 released · 2020-04-24

Package metadata

First published: 2020-10-01
Total releases: 10 / 6 yrs
License: GPL
Minimum R: ≥ 3.3
Bundled data: 161 KB / 2 files
Download size: 1.1 MB

Appears in task views

Agricultural Science

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("statgenGxE")

Format

van Rossum, B., Boer, M., Bustos-Korts, D., Jean-Francois, R., Kruijer, W., Malosetti, M., Michel, T. D., Millet, E. J., Paulo, J., Verouden, M., Wehrens, R., Zheng, C., & van Eeuwijk, F. (2025). statgenGxE: Genotype by Environment (GxE) Analysis (Version 1.0.11) [Computer software]. https://doi.org/10.32614/CRAN.package.statgenGxE

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 statgenGxE version 1.0.11 [Data set]. HJJB, LLC. Data release v2026-10-20. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-20, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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