R Observatory: Metrics for ofGEM version 1.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

ofGEM

A Meta-Analysis Approach with Filtering for Identifying Gene-Level Gene-Environment Interactions with Genetic Association Data

0packages depend

2.3Kdownloads / year

–test coverage

11/13flavors OK

Overview

About

Maintained by Jiebiao WangCRAN page ↗GitHub ↗Issues ↗

Offers a gene-based meta-analysis test with filtering to detect gene-environment interactions (GxE) with association data, proposed by Wang et al. (2018) doi:10.1002/gepi.22115. It first conducts a meta-filtering test to filter out unpromising SNPs by combining all samples in the consortia data. It then runs a test of omnibus-filtering-based GxE meta-analysis (ofGEM) that combines the strengths of the fixed- and random-effects meta-analysis with meta-filtering. It can also analyze data from multiple ethnic groups.

Install

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

install.packages("ofGEM", 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("randel/ofGEM")

Development version from randel/ofGEM. 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-ofgem

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-ofGEM

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-ofGEM

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

2NOTE11OK

Check messages

NOTECRAN incoming feasibilityr-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc

Maintainer: ‘Jiebiao Wang <randel.wang@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Jiebiao",
                      family = "Wang",
                      role = c("aut", "cre"),
                      email = "randel.wang@gmail.com"),
               person(given = "Qianying",
                      family = "Liu",
                      role = "aut"),
               person(given = c("Lin", "S."),
                      family = "Chen",
                      role = "aut"))
as necessary.

CRAN check page ↗

Slowest check: 55 s · r-devel-windows-x86_64

Status changes

NOTE11 OK, 2 NOTENow
NOTE12 OK, 2 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.0

READMENoVignettesNoNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 3
Examples that run: 100%3 run in a plain check
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 33%

How these are measured

Downloads

2.3K

CRAN downloads in the past year

Rank #19,103 · ~6/day · ~195/mo

Releases R versions

Daily download trend is not available in this view yet.

25130 days

68790 days

2.3K1 year

Compare downloads with other packages →

Also on89 r2u3 autocran155 c2d4u

How downloads are counted

Repository

randel/ofgem ↗Account: randel

3Stars

0Forks

0Open issues

0Open PRs

0Releases

6Commits

1Commit identities

6 commits · Last activity 2018-07-07

Responsiveness

not measured

Stars over time

2022-10-27 · 32026-07-07 · 3

How these are measured

PracticesBeta

1 development-tooling and community-health practice detected across 1 family in the upstream repository

Checks run against github.com/randel/ofgem on 2026-10-22.

Git structural (1)

.gitattributes

How this is detected·Detection ruleset v4 (2026-10-20)

Dependencies

Declared dependencies

2 external dependencies (excludes base and recommended)

Installing ofGEM adds 5 packages (3 with compiled code, 2.2 MB of source tarballs). Heaviest: forestplot 1.9 MB, checkmate 247 KB, backports 29 KB.

Depends (3)

CompQuadFormMASSforestplot

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 (from the free-text Author field) (3)

Jiebiao Wang

Qianying Liu

Lin S. Chen

Maintainer since 1.0 (2018)

Releases (1)

R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
R
R 4.0.0 released · 2020-04-24
R
R 3.6.0 released · 2019-04-26
1.0Latest
record
2018-07-13 · current release
R
R 3.5.0 released · 2018-04-23

Package metadata

First published: 2018-07-13
Total releases: 1 / 8 yrs
License: GPL
Bundled data: 5.1 KB / 1 file
Download size: 11 KB

Appears in task views

Meta-Analysis

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("ofGEM")

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 ofGEM version 1.0 [Data set]. HJJB, LLC. Data release v2026-10-23. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-23, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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