R Observatory: Metrics for DAPAR version 1.44.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

DAPAR

Bioc current

Tools for the Differential Analysis of Proteins Abundance with R

v1.44.0 · software · Artistic-2.0

View on Bioconductor ↗ Source ↗

Release Lineage

Entered 3.2 · Oct 14, 2015

Current · Requires R 4.6

1.0 In 22 of 49 releases 3.23

Description

The package DAPAR is a Bioconductor distributed R package which provides all the necessary functions to analyze quantitative data from label-free proteomics experiments. Contrarily to most other similar R packages, it is endowed with rich and user-friendly graphical interfaces, so that no programming skill is required (see `Prostar` package).

Test coverage

Line coverage

–

Expression

–

Tests / Examples

–

Functions

193 188 exported

Complexity

4.8 avg / 31 max

Call network

193 nodes / 239 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

22,408

Files

266

Compiled share

0%

Has compiled src

No

Language breakdown

R 13,240 (59.1%)Tests 1,941 (8.7%)Docs 7,169 (32%)Vignettes 58 (0.3%)

API

Exported functions

188

Internal functions

5

Recent export changes

v3.8+14 wrapper.pca, plotPCA_Eigen_hc, plotPCA_Var +11 more −8 buildLogText, wrapper.boxPlotD, wrapper.densityPlotD 5 more

v3.7+17 writeMSnsetToCSV, addOriginOfValue, saveParameters +14 more −12 wrapper.normalizeD2, normalizeD2, wrapper.mvImputation 9 more

Testing & CI

Has tests

Yes

Test-to-code ratio

0.15

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

100%

Unsafe pattern score

14

Dep constraint coverage

16.7%

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

22

First release

2015-10-13

Latest release

2026-04-28

Avg cadence

197 days

Cold removal rate

100%

Dep drift

186

LOC over versions

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

Documentation

READMENoVignettesYes · dynamicpkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 97%
Documented parameters: 100%
Return-value docs: 100%
References docs: 1%

Topics

Software › ResearchField › Proteomics

Software › WorkflowStep › Normalization

Software › WorkflowStep › Preprocessing

Software › Technology › MassSpectrometry

Software › WorkflowStep › QualityControl

Software › WorkflowStep › Pathways › GO

Software › Infrastructure › DataImport

Depended on by (3)

Bioconductor (2)

Prostar DAPARdata

CRAN (1)

mi4p

People

Samuel Wieczorek maintainer author
Helene Borges contributor
Thomas Burger author
Florence Combes author
Enora Fremy contributor
Manon Gaudin contributor
Vasile-Cosmin Lazar contributor

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("DAPAR")

Format

Wieczorek, S., Borges, H., Burger, T., Combes, F., Fremy, E., Gaudin, M., & Lazar, V. (2026). DAPAR: Tools for the Differential Analysis of Proteins Abundance with R (Version 1.44.0) [Computer software]. https://bioconductor.org/packages/DAPAR

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 DAPAR version 1.44.0 [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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