R Observatory: Metrics for protGear version 1.16.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

protGear

Bioc current

Protein Micro Array Data Management and Interactive Visualization

v1.16.0 · software · GPL-3

View on Bioconductor ↗ Source ↗

Release Lineage

Entered 3.15 · Apr 27, 2022

Current · Requires R 4.6

1.0 In 9 of 49 releases 3.23

Description

A generic three-step pre-processing package for protein microarray data. This package contains different data pre-processing procedures to allow comparison of their performance.These steps are background correction, the coefficient of variation (CV) based filtering, batch correction and normalization.

Test coverage

Line coverage

–

Expression

–

Tests / Examples

–

Functions

29 28 exported

Complexity

3.4 avg / 14 max

Call network

29 nodes / 13 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

4,315

Files

125

Compiled share

0%

Has compiled src

No

Language breakdown

R 2,563 (59.4%)Docs 1,107 (25.7%)Vignettes 645 (14.9%)

API

Exported functions

28

Internal functions

1

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

0%

Unsafe pattern score

0

Dep constraint coverage

100%

Secret pattern count

0

Bundled 3rd-party code

2 items

Portability & License

Min R version

4.2

System requirements

–

C++ standard

–

License

GPL-3

License flags

SPDX valid, OSI approved

History

Versions

9

First release

2022-04-26

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 · 271 wordsVignettesYes · dynamicpkgdown siteYesNEWSYes · 67% structuredCode of conductNoContributing guideNo

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

Topics

Software › Technology › Microarray

Software › Technology › Microarray › OneChannel

Software › WorkflowStep › Preprocessing

Software › ResearchField › BiomedicalInformatics

Software › ResearchField › Proteomics

Software › WorkflowStep › BatchEffect

Software › WorkflowStep › Normalization

Software › StatisticalMethod › Bayesian

Software › StatisticalMethod › Clustering

Software › StatisticalMethod › Regression

Software › ResearchField › SystemsBiology

Software › ResearchField › Immunology › ImmunoOncology

People

Kennedy Mwai maintainer author
Jacqueline Waeni contributor
James Mburu author

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("protGear")

Format

Mwai, K., Jacqueline Waeni, & James Mburu. (2026). protGear: Protein Micro Array Data Management and Interactive Visualization (Version 1.16.0) [Computer software]. https://bioconductor.org/packages/protGear

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 protGear version 1.16.0 [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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