R Observatory: Metrics for EstimateBreed version 1.0.2

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

EstimateBreed

1.0.2

Estimation of Environmental Variables and Genetic Parameters

0packages depend

2.4Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Willyan Junior Adorian BandeiraFirst published 2025-03-223 releasesCRAN page ↗GitHub ↗

Performs analyzes and estimates of environmental covariates and genetic parameters related to selection strategies and development of superior genotypes. It has two main functionalities, the first being about prediction models of covariates and environmental processes, while the second deals with the estimation of genetic parameters and selection strategies. Designed for researchers and professionals in genetics and environmental sciences, the package combines statistical methods for modeling and data analysis. This includes the plastochron estimate proposed by Porta et al. (2024) doi:10.1590/1807-1929/agriambi.v28n10e278299, Stress indices for genotype selection referenced by Ghazvini et al. (2024) doi:10.1007/s10343-024-00981-1, the Environmental Stress Index described by Tazzo et al. (2024) https://revistas.ufg.br/vet/article/view/77035, industrial quality indices of wheat genotypes (Szareski et al., 2019), doi:10.4238/gmr18223, Ear Indexes estimation (Rigotti et al., 2024), doi:10.13083/reveng.v32i1.17394, Selection index for protein and grain yield (de Pelegrin et al., 2017), doi:10.4236/ajps.2017.813224, Estimation of the ISGR - Genetic Selection Index for Resilience for environmental resilience (Bandeira et al., 2024) https://www.cropj.com/Carvalho_18_12_2024_825_830.pdf, estimation of Leaf Area Index (Meira et al., 2015) https://www.fag.edu.br/upload/revista/cultivando_o_saber/55d1ef202e494.pdf, Restriction of control variability (Carvalho et al., 2023) doi:10.4025/actasciagron.v45i1.56156, Risk of Disease Occurrence in Soybeans described by Engers et al. (2024) doi:10.1007/s40858-024-00649-1 and estimation of genetic parameters for selection based on balanced experiments (Yadav et al., 2024) doi:10.1155/2024/9946332.

Install

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

install.packages("EstimateBreed", 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("willyanjnr/EstimateBreed")

Development version from willyanjnr/EstimateBreed. 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-estimatebreed

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-EstimateBreed

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-EstimateBreed

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

Health

CRAN checks

13OK

Slowest check: 4.0 min · r-oldrel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

19

Dependencies · direct

Check history

OK2026-08-05
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-08-01
12 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
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
OK2026-04-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Show 2 earlier snapshots

ERROR2026-04-09
13 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 700 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 67% structuredCode of conductNoContributing guideNo

Examples that run: 96%
Documented parameters: 100%
Return-value docs: 100%
References docs: 37%

Downloads

2.4K

CRAN downloads in the past year

Rank #19,912 · ~7/day · ~203/mo

Releases R versions

Daily download trend is not available in this view yet.

13330 days

55390 days

2.4K1 year

Compare downloads with other packages →

Also on124 r2u

Repository

GitHub ↗ willyanjnr/estimatebreed

1Stars

0Forks

0Open issues

0Open PRs

1Releases

126Commits

3Contributors

License GPL-3.0 · 126 commits · Last activity 2025-11-02

Stars over time

2025-03-19 · 12026-07-07 · 1

Repository practices

Upstream repositoryBeta

2 development-tooling and community-health practices detected across 2 families in the upstream repository

Checks run against github.com/willyanjnr/estimatebreed on 2026-08-16.

Docs source (1)

README.Rmd

Lint, format, editor (1)

RStudio project

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

Dependencies

Declared dependencies

22 external dependencies (excludes base and recommended)

Depends (1)

R >= 4.1.0

Imports (19)

dplyr ggplot2 broom purrr ggrepelgridhttr jsonlite lubridate nasapower tidyr viridis cowplot sommer lme4 minqueutilscar lmtest

LinkingTo (0)

none

Suggests (5)

knitr rmarkdown testthat roxygen2 DT

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (5)

Maintainer (1)

Willyan Junior Adorian Bandeira

Author, Maintainer

Authors (5)

Willyan Junior Adorian Bandeira

Author, Maintainer

Ivan Ricardo Carvalho

Author, Contributor

Murilo Vieira Loro

Author, Contributor

Leonardo Cesar Pradebon

Author, Contributor

Jose Antonio Gonzalez da Silva

Author, Contributor

Contributors (4)

Ivan Ricardo Carvalho

Author, Contributor

Murilo Vieira Loro

Author, Contributor

Leonardo Cesar Pradebon

Author, Contributor

Jose Antonio Gonzalez da Silva

Author, Contributor

Package Timeline

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

R
R 4.6.0 released · 2026-04-24
1.0.2Latest
2025-11-03 · current release · diff ↗
unarchivedReturned to CRAN
2025-11-03
archivedRemoved from CRAN
2025-09-09
requires archived package 'hrbrthemes'
1.0.1
2025-04-17 · diff ↗
R
R 4.5.0 released · 2025-04-11
1.0.0
2025-03-22
R
R 4.4.0 released · 2024-04-24

Package metadata

First published: 2025-03-22
Total releases: 3 / 1 yrs
License: GPL (>= 3) OSI
Minimum R: ≥ 4.1.0
Bundled data: 41 KB / 15 files
Download size: 200 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("EstimateBreed")

Format

Bandeira, W. J. A., Carvalho, I. R., Loro, M. V., Pradebon, L. C., & da Silva, J. A. G. (2025). EstimateBreed: Estimation of Environmental Variables and Genetic Parameters (Version 1.0.2) [Computer software]. https://doi.org/10.32614/CRAN.package.EstimateBreed

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 EstimateBreed version 1.0.2 [Data set]. HJJB, LLC. Data release v2026-08-16. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-16, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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