R Observatory: Metrics for quantro version 1.46.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

quantro

Bioc current

A test for when to use quantile normalization

v1.46.0 · 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

A data-driven test for the assumptions of quantile normalization using raw data such as objects that inherit eSets (e.g. ExpressionSet, MethylSet). Group level information about each sample (such as Tumor / Normal status) must also be provided because the test assesses if there are global differences in the distributions between the user-defined groups.

Test coverage

Line coverage

–

Expression

–

Tests / Examples

–

Functions

11 4 exported

Complexity

3.7 avg / 19 max

Call network

11 nodes / 0 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

1,602

Files

30

Compiled share

0%

Has compiled src

No

Language breakdown

R 730 (45.6%)Tests 2 (0.1%)Docs 517 (32.3%)Vignettes 353 (22%)

API

Exported functions

11

Internal functions

7

Testing & CI

Has tests

Yes

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

0%

Secret pattern count

0

Bundled 3rd-party code

2 items

Portability & License

Min R version

4.0

System requirements

–

C++ standard

–

License

GPL-3

License flags

SPDX valid, OSI approved

History

Versions

24

First release

2014-10-13

Latest release

2026-04-28

Avg cadence

182 days

Cold removal rate

–

Dep drift

1

LOC over versions

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

Documentation

READMEYes · 624 wordsVignettesYes · dynamicpkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 91%
Documented parameters: 100%
Return-value docs: 36%
References docs: 0%

Topics

Software › WorkflowStep › Normalization

Software › WorkflowStep › Preprocessing

Software › WorkflowStep › MultipleComparison

Software › Technology › Microarray

Software › Technology › Sequencing

Depended on by (4)

Bioconductor (4)

extraChIPs qsmooth yarn netZooR

People

Stephanie Hicks author maintainer
Rafael Irizarry author

At a glance

Version: 1.46.0
Category: software
License: GPL-3
Requires R: ≥ 4.6
Maintainer: Stephanie Hicks
Entered: 3.0 · Oct 14, 2014
Current: 3.23 · Apr 29, 2026

Available on

CRAN r2u Bioconductor autoCRAN COPR

Dependencies

Depends

R (>= 4.0)

Imports

BiobaseBiocminfiBiocdoParallel foreach iterators ggplot2methodsRColorBrewer

Suggests

rmarkdown knitr RUnitBiocGenericsBiocBiocStyleBioc

Source & history

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("quantro")

Format

Hicks, S., & Irizarry, R. (2026). quantro: A test for when to use quantile normalization (Version 1.46.0) [Computer software]. https://bioconductor.org/packages/quantro

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 quantro version 1.46.0 [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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