R Observatory: Metrics for MOSClip version 1.6.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

MOSClip

Bioc current

Multi Omics Survival Clip

v1.6.0 · software · AGPL-3

View on Bioconductor ↗ Source ↗

Release Lineage

Entered 3.20 · Oct 30, 2024

Current · Requires R 4.6

1.0 In 4 of 49 releases 3.23

Description

Topological pathway analysis tool able to integrate multi-omics data. It finds survival-associated modules or significant modules for two-class analysis. This tool have two main methods: pathway tests and module tests. The latter method allows the user to dig inside the pathways itself.

Test coverage

Line coverage

–

Expression

–

Tests / Examples

–

Functions

102 30 exported

Complexity

3.7 avg / 20 max

Call network

102 nodes / 135 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

10,670

Files

125

Compiled share

0%

Has compiled src

No

Language breakdown

R 5,119 (48%)Tests 2,259 (21.2%)Docs 2,968 (27.8%)Vignettes 324 (3%)

API

Exported functions

33

Internal functions

72

Recent export changes

v3.20+33 addResamplingCounts, annotePathwayToFather, availableOmicMethods +30 more

Testing & CI

Has tests

Yes

Test-to-code ratio

0.44

testthat edition

–

CI present

No

CI type

[]

PR gated

No

Docs

Roxygen coverage

100%

Health & Security signals

Informational signals; not verdicts.

on.exit coverage

0%

Unsafe pattern score

3

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

4

First release

2024-10-29

Latest release

2026-04-28

Avg cadence

181 days

Cold removal rate

–

Dep drift

0

LOC over versions

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

Documentation

READMEYes · 196 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 67% structuredCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 96%
Return-value docs: 100%
References docs: 3%

Topics

Software

Software › StatisticalMethod

Software › StatisticalMethod › GraphAndNetwork

Software › StatisticalMethod › Survival

Software › StatisticalMethod › Regression

Software › StatisticalMethod › DimensionReduction

Software › WorkflowStep › Pathways

Software › WorkflowStep › Pathways › Reactome

People

Paolo Martini author maintainer
Federico Agostinis author
Anna Bortolato author
Enrica Calura author
Stefania Pirrotta author
Anna Tanada author

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("MOSClip")

Format

Martini, P., Agostinis, F., Bortolato, A., Calura, E., Pirrotta, S., & Tanada, A. (2026). MOSClip: Multi Omics Survival Clip (Version 1.6.0) [Computer software]. https://bioconductor.org/packages/MOSClip

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 MOSClip version 1.6.0 [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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