R Observatory: Metrics for bioCancer version 1.40.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

bioCancer

Bioc current

Interactive Multi-Omics Cancers Data Visualization and Analysis

v1.40.0 · software · AGPL-3 | file LICENSE

View on Bioconductor ↗ Source ↗

Release Lineage

Entered 3.4 · Oct 18, 2016

Current · Requires R 4.6

1.0 In 20 of 49 releases 3.23

Description

This package is a Shiny App to visualize and analyse interactively Multi-Assays of Cancer Genomic Data.

Test coverage

Line coverage

–

Expression

–

Tests / Examples

–

Functions

49 44 exported

Complexity

3.1 avg / 16 max

Call network

49 nodes / 21 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

6,563

Files

232

Compiled share

0%

Has compiled src

No

Language breakdown

R 2,880 (43.9%)Tests 38 (0.6%)Docs 1,890 (28.8%)Vignettes 1,755 (26.7%)

API

Exported functions

46

Internal functions

5

Recent export changes

v3.7+5 findPhantom, metabologram, metabologramOutput +2 more

v3.6+1 getSequensed_SampleSize −2 metabologram, sampleWheelData

Testing & CI

Has tests

Yes

Test-to-code ratio

0.01

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

0

Dep constraint coverage

25%

Secret pattern count

0

Bundled 3rd-party code

2 items

Portability & License

Min R version

3.6.0

System requirements

–

C++ standard

–

License

AGPL-3 | file LICENSE

License flags

SPDX valid, not OSI

History

Versions

20

First release

2016-10-17

Latest release

2026-04-28

Avg cadence

182 days

Cold removal rate

100%

Dep drift

55

LOC over versions

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

Documentation

READMEYes · 761 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 33% structuredCode of conductNoContributing guideNo

Examples that run: 93%
Documented parameters: 98%
Return-value docs: 93%
References docs: 7%

Topics

Software › Infrastructure › GUI

Software › Infrastructure › DataRepresentation

Software › WorkflowStep › Visualization › Network

Software › WorkflowStep › MultipleComparison

Software › WorkflowStep › Pathways

Software › WorkflowStep › Pathways › Reactome

Software › WorkflowStep › Visualization

Software › AssayDomain › GeneExpression

Software › BiologicalQuestion › GeneTarget

People

Karim Mezhoud author maintainer

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("bioCancer")

Format

Mezhoud, K. (2026). bioCancer: Interactive Multi-Omics Cancers Data Visualization and Analysis (Version 1.40.0) [Computer software]. https://bioconductor.org/packages/bioCancer

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 bioCancer version 1.40.0 [Data set]. HJJB, LLC. Data release v2026-08-23. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-23, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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