R Observatory: Metrics for predhy version 2.1.2

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

predhy

2.1.2

Genomic Prediction of Hybrid Performance

1packages depend

3.3Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Yang XuFirst published 2019-11-048 releasesCRAN page ↗

Performs genomic prediction of hybrid performance using eight statistical methods including GBLUP, BayesB, RKHS, PLS, LASSO, EN, LightGBM and XGBoost along with additive and additive-dominance models. Users are able to incorporate parental phenotypic information in all methods based on their specific needs. (Xu S et al(2017) doi:10.1534/g3.116.038059; Xu Y et al (2021) <doi: 10.1111/pbi.13458>).

Install

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

install.packages("predhy", 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-predhy

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-predhy

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-predhy

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

Health

CRAN checks

13OK

Slowest check: 2.3 min · r-oldrel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

8

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
NOTE2026-06-08
12 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMENoVignettesNopkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 44%
Documented parameters: 100%
Return-value docs: 100%
References docs: 25%

Downloads

3.3K

CRAN downloads in the past year

Rank #14,452 · ~9/day · ~272/mo

Releases R versions

Daily download trend is not available in this view yet.

16630 days

71590 days

3.3K1 year

Compare downloads with other packages →

Also on103 r2u28 autocran

Dependencies

Declared dependencies

7 external dependencies (excludes base and recommended)

Depends (1)

R >= 4.1.0

Imports (8)

BGLR pls glmnet xgboost lightgbm foreach doParallelparallel

LinkingTo (0)

none

Suggests (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

0indirect

predhy.GUI

Code & Tests

Datasets

People & History

People (5)

Maintainer (1)

Yang Xu

Author, Maintainer

Authors (5)

Author, Maintainer

Author

Author

Author

Author · added in 1.2.0

Package Timeline

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

R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
2.1.2Latest
2025-04-06 · current release · diff ↗
2.1.1
2024-05-23 · diff ↗
R
R 4.4.0 released · 2024-04-24
2.1.0
2024-03-29 · diff ↗
2.0.1
2024-02-25 · diff ↗
R
R 4.3.0 released · 2023-04-21
1.2.1
2022-11-08 · diff ↗
R
R 4.2.0 released · 2022-04-22
1.2.0
2021-08-16 · diff ↗
R
R 4.1.0 released · 2021-05-18
R
R 4.0.0 released · 2020-04-24
0.2.0
2020-03-20 · diff ↗
0.1.0
2019-11-04
R
R 3.6.0 released · 2019-04-26

Package metadata

First published: 2019-11-04
Total releases: 8 / 7 yrs
License: GPL-3 OSI
Minimum R: ≥ 4.1.0
Bundled data: 672 KB / 3 files
Download size: 686 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("predhy")

Format

Xu, Y., Cui, Y., Xu, C., Xu, S., & Yu, G. (2025). predhy: Genomic Prediction of Hybrid Performance (Version 2.1.2) [Computer software]. https://doi.org/10.32614/CRAN.package.predhy

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 predhy version 2.1.2 [Data set]. HJJB, LLC. Data release v2026-08-22. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-22, 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 →