R Observatory: Metrics for gINTomics version 1.8.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

gINTomics

Bioc current

Multi-Omics data integration

v1.8.0 · software · AGPL-3

View on Bioconductor ↗ Source ↗

Release Lineage

Entered 3.19 · May 1, 2024

Current · Requires R 4.6

1.0 In 5 of 49 releases 3.23

Description

gINTomics is an R package for Multi-Omics data integration and visualization. gINTomics is designed to detect the association between the expression of a target and of its regulators, taking into account also their genomics modifications such as Copy Number Variations (CNV) and methylation. What is more, gINTomics allows integration results visualization via a Shiny-based interactive app.

Test coverage

Line coverage

–

Expression

–

Tests / Examples

–

Functions

154 17 exported

Complexity

3.3 avg / 18 max

Call network

154 nodes / 207 edges

Test coverage is not measured for Bioconductor packages; nodes fall back to a neutral fill.

Call graph

Open call graph →

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Lowest coverage

Per-function coverage is not measured for this package yet.

Code

Structure

Lines of code

12,107

Files

69

Compiled share

0%

Has compiled src

No

Language breakdown

R 8,721 (72%)Tests 1,998 (16.5%)Docs 1,122 (9.3%)Vignettes 266 (2.2%)

API

Exported functions

18

Internal functions

137

Recent export changes

v3.19+18 create_multiassay, dot_plotly, extract_model_res +15 more

Testing & CI

Has tests

Yes

Test-to-code ratio

0.23

testthat edition

3

CI present

No

CI type

[]

PR gated

No

Docs

Roxygen coverage

100%

Health & Security signals

Informational signals; not verdicts.

on.exit coverage

14.3%

Unsafe pattern score

0

Dep constraint coverage

0%

Secret pattern count

0

Bundled 3rd-party code

2 items

Portability & License

Min R version

4.4.0

System requirements

–

C++ standard

–

License

AGPL-3

License flags

SPDX valid, OSI approved

History

Versions

5

First release

2024-04-30

Latest release

2026-04-28

Avg cadence

182 days

Cold removal rate

–

Dep drift

2

LOC over versions

Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.

Documentation

READMEYes · 1,878 wordsVignettesYes · dynamicpkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 100%
Return-value docs: 100%
References docs: 4%

Topics

Software › AssayDomain › GeneExpression

Software › Technology › Sequencing › RNASeq

Software › Technology › Microarray

Software › WorkflowStep › Visualization

Software › AssayDomain › CopyNumberVariation

Software › BiologicalQuestion › GeneTarget

People

Angelo Velle maintainer author
Francesco Patane' author
Chiara Romualdi author

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("gINTomics")

Format

Velle, A., Patane', F., & Romualdi, C. (2026). gINTomics: Multi-Omics data integration (Version 1.8.0) [Computer software]. https://bioconductor.org/packages/gINTomics

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 gINTomics version 1.8.0 [Data set]. HJJB, LLC. Data release v2026-08-22. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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