R Observatory: Metrics for epiomics version 1.2.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

epiomics

1.2.0

Analysis of Omics Data in Observational Studies

0packages depend

2.9Kdownloads / year

94.9%test coverage

13/13checks pass

Overview

About

Maintained by Jesse GoodrichFirst published 2023-01-094 releasesCRAN page ↗

A collection of fast and flexible functions for analyzing omics data in observational studies. Multiple different approaches for integrating multiple environmental/genetic factors, omics data, and/or phenotype data are implemented. This includes functions for performing omics wide association studies with one or more variables of interest as the exposure or outcome; a function for performing a meet in the middle analysis for linking exposures, omics, and outcomes (as described by Chadeau-Hyam et al., (2010) doi:10.3109/1354750X.2010.533285); and a function for performing a mixtures analysis across all omics features using quantile-based g-Computation (as described by Keil et al., (2019) doi:10.1289/EHP5838).

Install

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

install.packages("epiomics", 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-epiomics

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-epiomics

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-epiomics

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

Health

CRAN checks

13OK

Slowest check: 3.3 min · r-oldrel-windows-x86_64

Code health

Yes

Tests · ratio 0.88

94.9%

Coverage · measured lines

100%

Documentation · exports

6

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
OK2026-06-09
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-08
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 352 wordsVignettesNopkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 100%
Return-value docs: 100%
References docs: 0%

Downloads

2.9K

CRAN downloads in the past year

Rank #16,776 · ~8/day · ~243/mo

Releases R versions

Daily download trend is not available in this view yet.

16130 days

65890 days

2.9K1 year

Compare downloads with other packages →

Also on101 r2u32 autocran

Dependencies

Declared dependencies

5 external dependencies (excludes base and recommended)

Depends (1)

R >= 4.1.0

Imports (6)

data.table ggplot2 ggrepel qgcompstatssurvival

LinkingTo (0)

none

Suggests (1)

testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (1)

Maintainer (1)

Jesse Goodrich

Author, Maintainer

Authors (1)

Jesse Goodrich

Author, Maintainer

Package Timeline

4 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
1.2.0Latest
2025-02-14 · current release · diff ↗
R
R 4.4.0 released · 2024-04-24
1.1.0
2024-02-26 · diff ↗
R
R 4.3.0 released · 2023-04-21
1.0.0
2023-03-15 · diff ↗
0.0.1
2023-01-09
R
R 4.2.0 released · 2022-04-22

Package metadata

First published: 2023-01-09
Total releases: 4 / 3 yrs
License: GPL (>= 3) OSI
Minimum R: ≥ 4.1.0
Bundled data: 318 KB / 1 file
Download size: 340 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("epiomics")

Format

Goodrich, J. (2025). epiomics: Analysis of Omics Data in Observational Studies (Version 1.2.0) [Computer software]. https://doi.org/10.32614/CRAN.package.epiomics

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 epiomics version 1.2.0 [Data set]. HJJB, LLC. Data release v2026-08-26. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-26, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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