R Observatory: Metrics for statgenQTLxT version 1.0.3

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

statgenQTLxT

1.0.3Package record

Multi-Trait and Multi-Trial Genome Wide Association Studies

0packages depend

2.9Kdownloads / year

85.4%test coverage

13/13flavors OK

Overview

About

Maintained by Bart-Jan van RossumCRAN page ↗

Fast multi-trait and multi-trail Genome Wide Association Studies (GWAS) following the method described in Zhou and Stephens. (2014), doi:10.1038/nmeth.2848. One of a series of statistical genetic packages for streamlining the analysis of typical plant breeding experiments developed by Biometris.

Changes in 1.0.3

No user visual changes

From NEWS.md in the release

Install

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

install.packages("statgenQTLxT", 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-statgenqtlxt

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-statgenQTLxT

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-statgenQTLxT

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: 6.7 min · r-devel-windows-x86_64

Status changes

OK13 OK2026-09-08
ERROR12 OK, 1 ERROR2026-09-07
OK13 OK2026-08-04
NOTE12 OK, 1 NOTE2026-08-01
OK12 OK2026-04-25

Show 5 earlier changesHide 5 earlier changes

NOTE12 OK, 2 NOTE2026-04-22
ERROR11 OK, 2 NOTE, 1 ERROR2026-04-18
NOTE12 OK, 2 NOTE2026-04-10
ERROR11 OK, 2 NOTE, 1 ERROR2026-04-09
NOTE12 OK, 2 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.0.3

READMEYes · 125 wordsVignettesYes · 1 · dynamicNEWSYes · 100% structured · mentions 1.0.3Citation fileNoWebsitenot declared in DESCRIPTION

Help pages: 12 (10 internal)includes a package overview page
Examples that run: 0%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: 42%

Vignettes (1)

Multi-trait GWAS with the statgenQTLxT package

How these are measured

Downloads

2.9K

CRAN downloads in the past year

Rank #17,665 · ~8/day · ~243/mo

Releases R versions

Daily download trend is not available in this view yet.

27230 days

72790 days

2.9K1 year

Compare downloads with other packages →

Also on407 r2u4 autocran

How downloads are counted

Dependencies

Declared dependencies

11 external dependencies (excludes base and recommended)

Installing statgenQTLxT adds 31 packages (16 with compiled code, 40 MB of source tarballs). Heaviest: LMMsolver 7.1 MB, ggplot2 6.0 MB, data.table 5.7 MB.

Depends (1)

R >= 4.0

Imports (5)

data.table foreach Rcpp sommer statgenGWAS (>= 1.0.9)

LinkingTo (2)

Rcpp RcppArmadillo

Suggests (4)

covr knitr rmarkdown tinytest

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 (10)

Bart-Jan van Rossum

Author, Maintainer since 1.0.0 (2023)

Willem Kruijer

Author

Martin P Boer

Contributor · added in 1.0.3

Contributor

Contributor

Contributor

Contributor

Contributor

Contributor

Contributor

Listed in earlier versions (1)

Martin Boer

no longer listed · 1.0.0 to 1.0.2

Releases (4)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
1.0.3Latest
record
2025-07-23 · current release · diff ↗
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
1.0.2
record
2024-01-23 · diff ↗
R
R 4.3.0 released · 2023-04-21
1.0.1
record
2023-04-04 · diff ↗
1.0.0
record
2023-02-23
R
R 4.2.0 released · 2022-04-22

Package metadata

First published: 2023-02-23
Total releases: 4 / 3 yrs
License: GPL-3 OSI
Minimum R: ≥ 4.0
Bundled data: 257 KB / 1 file
Download size: 582 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("statgenQTLxT")

Format

van Rossum, B., Boer, M. P., Bustos-Korts, D., Kruijer, W., Millet, E. J., Paulo, J., Verouden, M., Wehrens, R., Zheng, C., & van Eeuwijk, F. (2025). statgenQTLxT: Multi-Trait and Multi-Trial Genome Wide Association Studies (Version 1.0.3) [Computer software]. https://doi.org/10.32614/CRAN.package.statgenQTLxT

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 statgenQTLxT version 1.0.3 [Data set]. HJJB, LLC. Data release v2026-10-22. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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