geneticae

1.0.1

Statistical Tools for the Analysis of Multi Environment Agronomic Trials

0packages depend

4.1Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Julia AngeliniFirst published 2021-09-166 releasesCRAN page ↗GitHub ↗

Provides tools for the analysis of multi-environment agronomic trials, with a specific focus on plant breeding experiments. Implements the Additive Main effects and Multiplicative Interaction (AMMI) model (Gauch, 1992, ISBN:9780444892409) and the Site Regression (SREG) model (Cornelius, 1996, doi:10.1201/9780367802226). To ensure reliable results even with outliers or missing data, it includes robust versions of AMMI (Rodrigues et al., 2016, doi:10.1093/bioinformatics/btv533) and SREG (Angelini et al., 2022, doi:10.1080/15427528.2022.2051217). Furthermore, the package offers advanced imputation techniques for multi-environment data, covering classical methodologies (Arciniegas-Alarcón et al., 2014, doi:10.2478/bile-2014-0006) and recently published imputation methods for MET data (Angelini et al., 2024, doi:10.1007/s10681-024-03344-z).

Install

R (CRAN)pak (dev)Ubuntu (r2u)

install.packages("geneticae", 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("jangelini/geneticae")

Development version from jangelini/geneticae. 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-geneticae

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

Health

CRAN checks

13OK

Slowest check: 5.7 min · r-devel-linux-x86_64-fedora-clang

Code health

Yes

Tests · ratio 0.11

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
OK2026-04-17
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-03-10
12 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 751 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 99%
Return-value docs: 100%
References docs: 83%

Downloads

4.1K

CRAN downloads in the past year

Rank #5,721 · ~11/day · ~338/mo

Releases R versions

Daily download trend is not available in this view yet.

41630 days

1.7K90 days

4.1K1 year

Compare downloads with other packages →

Also on119 r2u41 c2d4u

Repository

GitHub ↗ jangelini/geneticae

1Stars

0Forks

0Open issues

0Open PRs

0Releases

132Commits

3Contributors

132 commits · Last activity 2026-04-20

Stars over time

2024-11-26 · 12026-07-07 · 1

Repository practices

Upstream repositoryBeta

3 development-tooling and community-health practices detected across 3 families in the upstream repository

Checks run against github.com/jangelini/geneticae on 2026-07-19.

CRAN release process (1)

cran-comments.md

Docs source (1)

README.Rmd

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 >= 2.12.0

Imports (12)

statsggforce ggplot2 scalesMASSpcaMethods rrcov dplyr missMDA tidyr rlang corpcor

LinkingTo (0)

none

Suggests (6)

agridat spelling knitr rmarkdown patchwork testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Code Composition

R 2,284 (58%)Rd 934 (24%)Vignettes 734 (19%)

Code characteristics

Cyclomatic complexity: 11.0 median / 45 max
Test cases: 16 / 0.11 per code line

Test coverage

Line coverage

–

Expression

–

Tests / Examples

–

Functions

11 7 exported

Complexity

13.2 avg / 45 max

Call network

11 nodes / 6 edges

Call graph

Open call graph →

Loading call graph…

Lowest coverage

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

Datasets

Bundled datasets · 1

Name	Class	Rows × Cols	Also ships in
plrv	data.frame	504 × 6	in 2 packages

People & History

People (3)

Maintainer (1)

Julia Angelini

Author, Maintainer

Authors (3)

Julia Angelini

Author, Maintainer

Gerardo Cervigni

Author

Marcos Prunello

Author

Package Timeline

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

R
R 4.6.0 released · 2026-04-24
1.0.1Latest
2026-04-21 · current release · diff ↗
1.0.0
2026-04-16 · diff ↗
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
0.4.0
2022-07-20 · diff ↗
unarchivedReturned to CRAN
2022-07-20
archivedRemoved from CRAN
2022-05-21
requires archived package 'bcv'
R
R 4.2.0 released · 2022-04-22
0.3.0
2022-02-09 · diff ↗
unarchivedReturned to CRAN
2022-02-09
archivedRemoved from CRAN
2022-01-06
requires archived package 'GGEBiplotGUI'
0.2.0
2021-12-20 · diff ↗
0.1.0
2021-09-16
R
R 4.1.0 released · 2021-05-18

Package metadata

First published: 2021-09-16
Total releases: 6 / 5 yrs
License: GPL-2 OSI
Minimum R: ≥ 2.12.0
Bundled data: 6.7 KB / 1 file
Download size: 528 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Appears in task views

Agricultural Science Missing Data

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