R Observatory: Metrics for statgenHTP version 1.0.9.4

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

statgenHTP

1.0.9.4

High Throughput Phenotyping (HTP) Data Analysis

0packages depend

4.3Kdownloads / year

85.8%test coverage

13/13checks pass

Overview

About

Maintained by Bart-Jan van RossumFirst published 2021-03-0515 releasesCRAN page ↗GitHub ↗

Phenotypic analysis of data coming from high throughput phenotyping (HTP) platforms, including different types of outlier detection, spatial analysis, and parameter estimation. The package is being developed within the EPPN2020 project (https://cordis.europa.eu/project/id/731013). 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/).

Install

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

install.packages("statgenHTP", 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/statgenHTP")

Development version from Biometris/statgenHTP. 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-statgenhtp

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-statgenHTP

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-statgenHTP

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

Health

CRAN checks

13OK

Slowest check: 10.6 min · r-oldrel-windows-x86_64

Code health

Yes

Tests · ratio 0.00

85.8%

Coverage · measured lines

100%

Documentation · exports

15

Dependencies · direct

Check history

OK2026-08-04
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-08-01
12 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-04-25
12 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-03-10
11 OK · 3 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 79 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 69%
Documented parameters: 95%
Return-value docs: 100%
References docs: 16%

Downloads

4.3K

CRAN downloads in the past year

Rank #5,763 · ~12/day · ~361/mo

Releases R versions

Daily download trend is not available in this view yet.

23330 days

1.4K90 days

4.3K1 year

Compare downloads with other packages →

Also on206 r2u17 autocran24 c2d4u

Repository

GitHub ↗ biometris/statgenhtp

9Stars

2Forks

0Open issues

0Open PRs

0Releases

875Commits

3Contributors

geneticscranhigh-troughput-phenotypingr-package

875 commits · Last activity 2026-07-06 · 0% stars, 30d

Stars over time

2025-08-19 · 72026-07-07 · 9

Repository practices

Upstream repositoryBeta

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

Checks run against github.com/biometris/statgenhtp on 2026-08-16.

Continuous integration (2)

GitHub ActionsGitLab CI

Reproducibility and dev environment (1)

data-raw/

CRAN release process (1)

cran-comments.md

Docs source (1)

README.Rmd

Show all practices

Lint, format, editor (1)

RStudio project

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

Dependencies

Declared dependencies

16 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.6

Imports (15)

animation ggforce ggplot2 ggnewscalegridgridExtraMatrixmethodsLMMsolver locfit lubridate rlang scales spam SpATS

LinkingTo (0)

none

Suggests (4)

asreml knitr rmarkdown tinytest

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (8)

Maintainer (1)

Bart-Jan van Rossum

Author, Maintainer

Authors (8)

Author, Maintainer

Author

Author

Author

Diana Marcela Perez Valencia

Author

Maria Xose Rodriguez Alvarez

Author

Isabelle Sanchez

Author

Fred van Eeuwijk

Author

Package Timeline

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

1.0.9.4Latest
2026-07-06 · current release · diff ↗
1.0.9.3
2026-07-02 · diff ↗
1.0.9.2
2026-05-21 · diff ↗
R
R 4.6.0 released · 2026-04-24
1.0.9.1
2025-07-03 · diff ↗
1.0.9
2025-07-02 · diff ↗
1.0.8
2025-04-29 · diff ↗
R
R 4.5.0 released · 2025-04-11
1.0.7
2024-10-14 · diff ↗
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
1.0.6.1
2023-04-14 · diff ↗
1.0.6
2022-12-13 · diff ↗
R
R 4.2.0 released · 2022-04-22
1.0.5
2021-09-15 · diff ↗
1.0.4
2021-08-20 · diff ↗

Show 6 earlier events

1.0.3
2021-06-18 · diff ↗
1.0.2
2021-06-10 · diff ↗
R
R 4.1.0 released · 2021-05-18
1.0.1
2021-03-09 · diff ↗
1.0.0
2021-03-05
R
R 4.0.0 released · 2020-04-24

Package metadata

First published: 2021-03-05
Total releases: 15 / 5 yrs
License: GPL
Minimum R: ≥ 3.6
Bundled data: 3.2 MB / 7 files
Download size: 3.7 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Appears in task views

Agricultural Science

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("statgenHTP")

Format

van Rossum, B., Boer, M., Hilgert, N., Millet, E. J., Perez Valencia, D. M., Rodriguez Alvarez, M. X., Sanchez, I., & van Eeuwijk, F. (2026). statgenHTP: High Throughput Phenotyping (HTP) Data Analysis (Version 1.0.9.4) [Computer software]. https://doi.org/10.32614/CRAN.package.statgenHTP

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 statgenHTP version 1.0.9.4 [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.

Report a problem with this page →