R Observatory: Metrics for predhy version 2.1.3

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

predhy

2.1.3Package record

Genomic Prediction of Hybrid Performance

1packages depend

3.4Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Yang XuCRAN 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. 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-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). 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: 2.2 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK13 OK2026-06-09
NOTE12 OK, 1 NOTE2026-06-08
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 2.1.3

READMENoVignettesNoNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 12
Examples that run: 44%4 run in a plain check · 5 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: 25%

How these are measured

Downloads

3.4K

CRAN downloads in the past year

Rank #12,350 · ~9/day · ~287/mo

Releases R versions

Daily download trend is not available in this view yet.

45330 days

89590 days

3.4K1 year

Compare downloads with other packages →

Also on80 r2u1 autocran

How downloads are counted

Dependencies

Declared dependencies

7 external dependencies (excludes base and recommended)

Installing predhy adds 15 packages (9 with compiled code, 26 MB of source tarballs). Heaviest: data.table 5.7 MB, BGLR 4.7 MB, pls 4.2 MB.

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

Imports 1

Depends, Imports or LinkingTo, most downloaded first

predhy.GUI

How these are counted

Code & Tests

Datasets

People & History

People (5)

Yang Xu

Author, Maintainer since 0.1.0 (2019)

Author

Author

Author

Author · added in 1.2.0

Releases (9)

Pick two releases to compare their code metrics.

2.1.3Latest
record
2026-09-21 · current release · diff ↗
R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
2.1.2
record
2025-04-06 · diff ↗
2.1.1
record
2024-05-23 · diff ↗
R
R 4.4.0 released · 2024-04-24
2.1.0
record
2024-03-29 · diff ↗
2.0.1
record
2024-02-25 · diff ↗
R
R 4.3.0 released · 2023-04-21
1.2.1
record
2022-11-08 · diff ↗ ·
added 1 export
predhy.predict_NCII
R
R 4.2.0 released · 2022-04-22
1.2.0
record
2021-08-16 · diff ↗ ·
removed 1 export
predhybrid

added 1 export
predhy.predict
R
R 4.1.0 released · 2021-05-18
R
R 4.0.0 released · 2020-04-24
0.2.0
record
2020-03-20 · diff ↗
0.1.0
record
2019-11-04

Show 1 earlier eventHide 1 earlier event

R
R 3.6.0 released · 2019-04-26

Package metadata

First published: 2019-11-04
Total releases: 9 / 7 yrs
License: GPL-3 OSI
Minimum R: ≥ 4.1.0
Bundled data: 672 KB / 3 files
Download size: 686 KB

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. (2026). predhy: Genomic Prediction of Hybrid Performance (Version 2.1.3) [Computer software]. https://doi.org/10.32614/CRAN.package.predhy

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 predhy version 2.1.3 [Data set]. HJJB, LLC. Data release v2026-10-21. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-21, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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