R Observatory: Metrics for ClassifyR version 3.16.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

ClassifyR

Bioc current

A framework for cross-validated classification problems, with applications to differential variability and differential distribution testing

v3.16.0 · software · GPL-3

View on Bioconductor ↗ Source ↗

Release Lineage

Entered 3.0 · Oct 14, 2014

Current · Requires R 4.6

1.0 In 24 of 49 releases 3.23

Description

The software formalises a framework for classification and survival model evaluation in R. There are four stages; Data transformation, feature selection, model training, and prediction. The requirements of variable types and variable order are fixed, but specialised variables for functions can also be provided. The framework is wrapped in a driver loop that reproducibly carries out a number of cross-validation schemes. Functions for differential mean, differential variability, and differential distribution are included. Additional functions may be developed by the user, by creating an interface to the framework.

Test coverage

Line coverage

–

Expression

–

Tests / Examples

–

Functions

142 15 exported

Complexity

4.9 avg / 49 max

Call network

142 nodes / 66 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

15,244

Files

264

Compiled share

6.2%

Has compiled src

Yes

Language breakdown

R 10,556 (69.2%)C/C++/src 945 (6.2%)Docs 2,923 (19.2%)Vignettes 820 (5.4%)

API

Exported functions

46

Internal functions

118

Testing & CI

Has tests

No

Test-to-code ratio

0.00

testthat edition

–

CI present

No

CI type

[]

PR gated

No

Docs

Roxygen coverage

100%

Health & Security signals

Informational signals; not verdicts.

on.exit coverage

–

Unsafe pattern score

0

Dep constraint coverage

5.3%

Secret pattern count

0

Bundled 3rd-party code

2 items

Portability & License

Min R version

4.1.0

System requirements

–

C++ standard

C++11

License

GPL-3

License flags

SPDX valid, OSI approved

History

Versions

24

First release

2015-03-13

Latest release

2026-04-28

Avg cadence

173 days

Cold removal rate

100%

Dep drift

23

LOC over versions

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

Documentation

READMEYes · 213 wordsVignettesYes · dynamicpkgdown siteYesNEWSNoCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 68%
Return-value docs: 62%
References docs: 9%

Topics

Software › StatisticalMethod › Classification

Software › StatisticalMethod › Survival

Depended on by (5)

Bioconductor (5)

scFeatures spicyR Statial TOP spicyWorkflow

People

Dario Strbenac author maintainer
Sourish Iyengar author
Graham Mann author
John Ormerod author
Ellis Patrick author
Harry Robertson author
Andy Tran author
Jean Yang author

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("ClassifyR")

Format

Strbenac, D., Iyengar, S., Mann, G., Ormerod, J., Patrick, E., Robertson, H., Tran, A., & Yang, J. (2026). ClassifyR: A framework for cross-validated classification problems, with applications to differential variability and differential distribution testing (Version 3.16.0) [Computer software]. https://bioconductor.org/packages/ClassifyR

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 ClassifyR version 3.16.0 [Data set]. HJJB, LLC. Data release v2026-08-24. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-24, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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