R Observatory: Metrics for GEInter version 0.3.2

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

GEInter

0.3.2Package record

Robust Gene-Environment Interaction Analysis

0packages depend

2.9Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Xing QinCRAN page ↗

Description: For the risk, progression, and response to treatment of many complex diseases, it has been increasingly recognized that gene-environment interactions play important roles beyond the main genetic and environmental effects. In practical interaction analyses, outliers in response variables and covariates are not uncommon. In addition, missingness in environmental factors is routinely encountered in epidemiological studies. The developed package consists of five robust approaches to address the outliers problems, among which two approaches can also accommodate missingness in environmental factors. Both continuous and right censored responses are considered. The proposed approaches are based on penalization and sparse boosting techniques for identifying important interactions, which are realized using efficient algorithms. Beyond the gene-environment analysis, the developed package can also be adopted to conduct analysis on interactions between other types of low-dimensional and high-dimensional data. (Mengyun Wu et al (2017), doi:10.1080/00949655.2018.1523411; Mengyun Wu et al (2017), doi:10.1002/gepi.22055; Yaqing Xu et al (2018), doi:10.1080/00949655.2018.1523411; Yaqing Xu et al (2019), doi:10.1016/j.ygeno.2018.07.006; Mengyun Wu et al (2021), doi:10.1093/bioinformatics/btab318).

Changes in 0.3.2

Remove unnecessary package 'survAUC' in the DESCRIPTION file.

From NEWS.md in the release

Install

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

install.packages("GEInter", 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-geinter

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-GEInter

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-GEInter

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: 2.8 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK13 OK2026-06-09
ERROR12 OK, 1 ERROR2026-06-08
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.3.2

READMENoVignettesNoNEWSYes · 100% structured · mentions 0.3.2Citation fileNoWebsitenot declared in DESCRIPTION

Help pages: 30
Examples that run: 100%11 run in a plain check
Exported functions with examples: 32%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 87%

How these are measured

Downloads

2.9K

CRAN downloads in the past year

Rank #15,177 · ~8/day · ~242/mo

Releases R versions

Daily download trend is not available in this view yet.

34130 days

79590 days

2.9K1 year

Compare downloads with other packages →

Also on91 r2u2 autocran

How downloads are counted

Dependencies

Declared dependencies

5 external dependencies (excludes base and recommended)

Installing GEInter adds 59 packages (33 with compiled code, 57 MB of source tarballs). Heaviest: stringi 11 MB, ggplot2 6.0 MB, data.table 5.7 MB.

Depends (1)

R >= 3.5.0

Imports (10)

MASSsplinespcaPP Hmiscsurvivalquantreg reshape2 ggplot2statsgraphics

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 (3)

Xing Qin

Author, Maintainer since 0.1.0 (2021)

Shuangge Ma

Author

Mengyun Wu

Author

Releases (5)

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
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
0.3.2Latest
record
2022-05-19 · current release · diff ↗
R
R 4.2.0 released · 2022-04-22
unarchivedReturned to CRAN
2021-07-10
0.3.1
record
2021-07-10 · diff ↗
archivedRemoved from CRAN
2021-05-27
check problems were not corrected in time
R
R 4.1.0 released · 2021-05-18
0.3.0
record
2021-03-22 · diff ↗
0.2.0
record
2021-03-01 · diff ↗ ·
removed 1 export
Augmentated.data

added 1 export
Augmented.data
0.1.0
record
2021-01-21
R
R 4.0.0 released · 2020-04-24

Package metadata

First published: 2021-01-21
Total releases: 5 / 5 yrs
License: GPL-2 OSI
Minimum R: ≥ 3.5.0
Bundled data: 2.7 MB / 2 files
Download size: 2.7 MB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("GEInter")

Format

Qin, X., Ma, S., & Wu, M. (2022). GEInter: Robust Gene-Environment Interaction Analysis (Version 0.3.2) [Computer software]. https://doi.org/10.32614/CRAN.package.GEInter

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 GEInter version 0.3.2 [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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