R Observatory: Metrics for VIGoR version 1.1.5

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

VIGoR

1.1.5

Variational Bayesian Inference for Genome-Wide Regression

0packages depend

2.6Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Akio OnogiFirst published 2022-10-187 releasesCRAN page ↗

Conducts linear regression using variational Bayesian inference, particularly optimized for genome-wide association mapping and whole-genome prediction which use a number of DNA markers as the explanatory variables. Provides seven regression models which select the important variables (i.e., the variables related to response variables) among the given explanatory variables in different ways (i.e., model structures).

Install

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

install.packages("VIGoR", 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-vigor

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-VIGoR

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-VIGoR

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

Health

CRAN checks

13OK

Slowest check: 2.0 min · r-devel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

0

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
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMENoVignettesNopkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 50%
Documented parameters: 100%
Return-value docs: 100%
References docs: 33%

Downloads

2.6K

CRAN downloads in the past year

Rank #22,496 · ~7/day · ~216/mo

Releases R versions

Daily download trend is not available in this view yet.

7230 days

47390 days

2.6K1 year

Compare downloads with other packages →

Also on369 r2u18 autocran

Dependencies

Declared dependencies

0 external dependencies (excludes base and recommended)

Depends (0)

none

Imports (0)

none

LinkingTo (0)

none

Suggests (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (7)

Maintainer (1)

Akio Onogi

Author, Maintainer, Copyright holder

Authors (1)

Akio Onogi

Author, Maintainer, Copyright holder

Contributors (5)

STRUCTURE software contributors

Contributor · added in 1.1.1

Peter Beerli

Contributor · added in 1.1.1

Makoto Matsumoto

Contributor · added in 1.1.1

Alan Miller

Contributor · added in 1.1.1

Takuji Nishimura

Contributor · added in 1.1.1

Copyright holders (2)

Akio Onogi

Author, Maintainer, Copyright holder

Hiroyoshi Iwata

Copyright holder

Listed in earlier versions (1)

R Core Team

no longer listed · 1.1.1 to 1.1.3

Package Timeline

7 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
1.1.5Latest
2024-09-11 · current release · diff ↗
1.1.4
2024-05-28 · diff ↗
unarchivedReturned to CRAN
2024-05-28
archivedRemoved from CRAN
2024-05-06
issues were not corrected in time Contains copies of R headers, submitted after being asked to remove them
1.1.3
2024-05-01 · diff ↗
R
R 4.4.0 released · 2024-04-24
1.1.2
2023-06-05 · diff ↗
R
R 4.3.0 released · 2023-04-21
1.1.1
2022-10-18 · diff ↗
removedRemoved from CRAN
2022-10-03
policy violation Misrepresentation of authorship, non-acknowledgement of copyright in the DESCRIPTION file Back on CRAN on 2022-10-18
R
R 4.2.0 released · 2022-04-22
1.1.0
2021-10-05 · diff ↗
R
R 4.1.0 released · 2021-05-18
R
R 4.0.0 released · 2020-04-24

Show 6 earlier events

R
R 3.6.0 released · 2019-04-26
R
R 3.5.0 released · 2018-04-23
R
R 3.4.0 released · 2017-04-21
R
R 3.3.0 released · 2016-05-03
1.0
2015-05-20
R
R 3.2.0 released · 2015-04-16

Package metadata

First published: 2022-10-18
Total releases: 7 / 4 yrs
License: MIT + file LICENSE OSI
Bundled data: 166 KB / 1 file
Download size: 195 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("VIGoR")

Format

Onogi, A., STRUCTURE software contributors, Beerli, P., Iwata, H., Matsumoto, M., Miller, A., & Nishimura, T. (2024). VIGoR: Variational Bayesian Inference for Genome-Wide Regression (Version 1.1.5) [Computer software]. https://doi.org/10.32614/CRAN.package.VIGoR

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 VIGoR version 1.1.5 [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.

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