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 · Package record · 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.

Advisories

None published for Bioconductor

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.

How coverage is measured·How the call graph is built

Code

Structure

Lines of code

2,146

Files

31

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

Has tests

Yes

Test-to-code ratio

0.00

testthat edition

–

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

In the Bioconductor 3.23 release

READMEYes · 808 wordsVignettesYes · 1 · dynamicNEWSYes · 67% structured · mentions 1.0.0Citation fileNo

Help pages: 6
Examples that run: 100%6 run in a plain check (5 of them under a condition)
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 0%

Vignettes (1)

imageFeatureTCGA HTML

Changes in 1.0.0 (Bioconductor 3.23)

New features

Added a NEWS.md file to track changes to the package.

From NEWS.md in the release

How these are measured

Repository practices

Upstream repositoryBeta

5 development-tooling and community-health practices detected across 3 families in the upstream repository

Checks run against github.com/waldronlab/imagefeaturetcga on 2026-10-22.

Continuous integration (2)

GitHub ActionsR CMD check workflow

Docs source (2)

pkgdown

GitHub Pages site

Reproducibility and dev environment (1)

data-raw/

How this is detected·Detection ruleset v4 (2026-10-20)

Topics

Software

Software › Infrastructure

Software › Infrastructure › DataImport

Software › Infrastructure › DataRepresentation

Maintainer: Ilaria Billato

Available on

CRANr2uBioconductorautoCRANCOPR

Depended on by (1)

Bioconductor (1)

HistoImagePlot

Suggested by (1)

imageTCGAutils

People

Ilaria Billato author maintainer
Department of Biology, University of Padova
Eslam Abousamra author
CUNY Graduate School of Public Health and Health Policy, New York, NY USA
Sehyun Oh author
CUNY Graduate School of Public Health and Health Policy, New York, NY USA
Marcel Ramos author
CUNY Graduate School of Public Health and Health Policy, New York, NY USA

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 package has no citation file, so citation() returns this entry built from DESCRIPTION.

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 v2026-10-24. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-24, which the citation names so these numbers can be found later. More on citing and the projects behind them.

Report a problem with this page →