R Observatory: Metrics for imageFeatureTCGA version 1.0.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

imageFeatureTCGA

Bioc current

Import features from hovernet, provgigapath into a MultiAssayExperiment

v1.0.0 · software · Artistic-2.0

View on Bioconductor ↗ Source ↗

Release Lineage

Entered 3.23 · Apr 29, 2026

Current · Requires R 4.6

1.0 In 1 of 49 releases 3.23

Description

The package imports data from HoverNet, and ProvGigaPath pipelines. Pipeline output data are hosted in a self-owned online repository. Package functionality conveniently incorporates pipeline data into existing MultiAssayExperiment instances from curatedTCGAData.

Test coverage

Line coverage

–

Expression

–

Tests / Examples

–

Functions

25 7 exported

Complexity

2.8 avg / 11 max

Call network

25 nodes / 16 edges

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

Call graph

Open call graph →

Loading call graph…

Lowest coverage

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

Code

Structure

Lines of code

2,146

Files

34

Compiled share

0%

Has compiled src

No

Language breakdown

R 1,256 (58.5%)Tests 3 (0.1%)Docs 582 (27.1%)Vignettes 305 (14.2%)

API

Exported functions

7

Internal functions

18

Recent export changes

v3.23+7 HoverNet, ProvGiga, ProvGigaList +4 more

Testing & CI

Has tests

Yes

Test-to-code ratio

0.00

testthat edition

–

CI present

Yes

CI type

["github-actions"]

PR gated

Yes

Docs

Roxygen coverage

100%

Health & Security signals

Informational signals; not verdicts.

on.exit coverage

0%

Unsafe pattern score

0

Dep constraint coverage

0%

Secret pattern count

0

Bundled 3rd-party code

2 items

Portability & License

Min R version

4.5.0

System requirements

–

C++ standard

–

License

Artistic-2.0

License flags

SPDX valid, OSI approved

History

Versions

1

First release

2026-04-28

Latest release

2026-04-28

Avg cadence

–

Cold removal rate

–

Dep drift

0

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

Documentation

READMEYes · 808 wordsVignettesYes · dynamicpkgdown siteYesNEWSYes · 67% structuredCode of conductNoContributing guideNo

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

Topics

Software

Software › Infrastructure

Software › Infrastructure › DataImport

Software › Infrastructure › DataRepresentation

Depended on by (2)

Bioconductor (2)

HistoImagePlot imageTCGAutils

People

Ilaria Billato author maintainer
Eslam Abousamra author
Sehyun Oh author
Marcel Ramos author

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("imageFeatureTCGA")

Format

Billato, I., Abousamra, E., Oh, S., & Ramos, M. (2026). imageFeatureTCGA: Import features from hovernet, provgigapath into a MultiAssayExperiment (Version 1.0.0) [Computer software]. https://bioconductor.org/packages/imageFeatureTCGA

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 imageFeatureTCGA version 1.0.0 [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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