R Observatory: Metrics for VIGoR version 1.1.5

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

VIGoR

1.1.5Package record

Variational Bayesian Inference for Genome-Wide Regression

0packages depend

2.5Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Akio OnogiCRAN 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. 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-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). 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: 1.9 min · r-devel-windows-x86_64

Status changes

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

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.1.5

READMENoVignettesNoNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 6
Examples that run: 50%3 run in a plain check · 3 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: 33%

How these are measured

Downloads

2.5K

CRAN downloads in the past year

Rank #23,918 · ~7/day · ~209/mo

Releases R versions

Daily download trend is not available in this view yet.

23130 days

53790 days

2.5K1 year

Compare downloads with other packages →

Also on342 r2u3 autocran

How downloads are counted

Dependencies

Declared dependencies

0 external dependencies (excludes base and recommended)

Installing VIGoR adds no packages beyond those that come with R.

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.

How these are counted

Code & Tests

Datasets

People & History

People (7)

Akio Onogi

Author, Maintainer since 1.0 (2015), Copyright holder

STRUCTURE software contributors

Contributor · added in 1.1.1

Provide snorm and RNormal functions in header2.h

Peter Beerli

Contributor · added in 1.1.1

Translate mylgamma function in header2.h

Makoto Matsumoto

Contributor · added in 1.1.1

Developer of Mersenne twister in header1.h

Alan Miller

Contributor · added in 1.1.1

Program mylgamma function in header2.h

Takuji Nishimura

Contributor · added in 1.1.1

Developer of Mersenne twister in header1.h

Hiroyoshi Iwata

Copyright holder

Listed in earlier versions (1)

R Core Team

no longer listed · 1.1.1 to 1.1.3

Releases (7)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
1.1.5Latest
record
2024-09-11 · current release · diff ↗
unarchivedReturned to CRAN
2024-05-28
1.1.4
record
2024-05-28 · diff ↗
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
record
2024-05-01 · diff ↗
R
R 4.4.0 released · 2024-04-24
1.1.2
record
2023-06-05 · diff ↗
R
R 4.3.0 released · 2023-04-21
1.1.1
record
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
record
2021-10-05 · diff ↗ ·
added 1 export
predict_vigor
R
R 4.1.0 released · 2021-05-18
R
R 4.0.0 released · 2020-04-24

Show 6 earlier eventsHide 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
record
2015-05-20
R
R 3.2.0 released · 2015-04-16

Package metadata

First published: 2015-05-20
Total releases: 7 / 11 yrs
License: MIT + file LICENSE OSI
Bundled data: 166 KB / 1 file
Download size: 195 KB

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 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 VIGoR version 1.1.5 [Data set]. HJJB, LLC. Data release v2026-10-26. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-26, 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 →