R Observatory: Metrics for plotgardener version 1.18.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

plotgardener

Bioc current

Coordinate-Based Genomic Visualization Package for R

v1.18.0 · software · MIT + file LICENSE

View on Bioconductor ↗ Source ↗

Release Lineage

Entered 3.14 · Oct 27, 2021

Current · Requires R 4.6

1.0 In 10 of 49 releases 3.23

Description

Coordinate-based genomic visualization package for R. It grants users the ability to programmatically produce complex, multi-paneled figures. Tailored for genomics, plotgardener allows users to visualize large complex genomic datasets and provides exquisite control over how plots are placed and arranged on a page.

Test coverage

Line coverage

–

Expression

–

Tests / Examples

–

Functions

117 54 exported

Complexity

10.3 avg / 75 max

Call network

117 nodes / 440 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

34,164

Files

197

Compiled share

0.4%

Has compiled src

Yes

Language breakdown

R 22,635 (66.3%)C/C++/src 142 (0.4%)Tests 1,276 (3.7%)Docs 6,153 (18%)Vignettes 3,958 (11.6%)

API

Exported functions

54

Internal functions

57

Recent export changes

v3.20+4 readCool, readCoolBpResolutions, readCoolChroms +1 more

Testing & CI

Has tests

Yes

Test-to-code ratio

0.06

testthat edition

3

CI present

Yes

CI type

["github-actions"]

PR gated

Yes

Docs

Roxygen coverage

100%

Health & Security signals

Informational signals; not verdicts.

on.exit coverage

66.7%

Unsafe pattern score

60

Dep constraint coverage

0%

Secret pattern count

0

Bundled 3rd-party code

2 items

Portability & License

Min R version

4.1.0

System requirements

–

C++ standard

–

License

MIT + file LICENSE

License flags

SPDX valid, OSI approved

History

Versions

10

First release

2022-03-16

Latest release

2026-04-28

Avg cadence

168 days

Cold removal rate

–

Dep drift

5

LOC over versions

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

Documentation

READMEYes · 338 wordsVignettesYes · dynamicpkgdown siteYesNEWSYes · 67% structuredCode of conductNoContributing guideNo

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

Topics

Software › WorkflowStep › Visualization

Software › BiologicalQuestion › GenomeAnnotation

Software › ResearchField › FunctionalGenomics

Software › BiologicalQuestion › GenomeAssembly

Software › Technology › Sequencing › HiC

Depended on by (5)

Bioconductor (5)

DegCre mariner nullranges rigvf Ularcirc

People

Nicole Kramer

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("plotgardener")

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 plotgardener version 1.18.0 [Data set]. HJJB, LLC. Data release v2026-08-25. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-25, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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