ggsc

Bioc current

Visualizing Single Cell and Spatial Transcriptomics

v1.10.1 · software · Artistic-2.0

View on Bioconductor ↗ Source ↗

Release Lineage

Entered 3.18 · Oct 25, 2023

Current · Requires R 4.6

1.0 In 6 of 49 releases 3.23

Description

Useful functions to visualize single cell and spatial data. It supports visualizing 'Seurat', 'SingleCellExperiment' and 'SpatialExperiment' objects through grammar of graphics syntax implemented in 'ggplot2'.

Test coverage

Line coverage

–

Expression

–

Tests / Examples

–

Functions

70 13 exported

Complexity

3.2 avg / 20 max

Call network

70 nodes / 36 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

4,718

Files

Compiled share

Has compiled src

Yes

Language breakdown

R 2,856 (60.5%)C/C++/src 191 (4%)Tests 35 (0.7%)Docs 1,606 (34%)Vignettes 30 (0.6%)

API

Exported functions

Internal functions

Recent export changes

v3.20+5 %<+%, draw_key_bgpoint, geom_bgpoint +2 more −1 draw_key_scattermore2

v3.19+6 draw_key_scattermore2, geom_scattermore2, sc_dot +3 more

Testing & CI

Has tests

Yes

Test-to-code ratio

0.01

testthat edition

CI present

Yes

CI type

["github-actions"]

PR gated

Yes

Docs

Roxygen coverage

95.7%

Health & Security signals

Informational signals; not verdicts.

on.exit coverage

–

Unsafe pattern score

Dep constraint coverage

4.5%

Secret pattern count

Bundled 3rd-party code

2 items

Portability & License

Min R version

4.1.0

System requirements

C++ standard

–

License

Artistic-2.0

License flags

SPDX valid, OSI approved

History

Versions

First release

2023-10-31

Latest release

2026-05-17

Avg cadence

182 days

Cold removal rate

100%

Dep drift

LOC over versions

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

Documentation

READMEYes · 103 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 87%
Documented parameters: 98%
Return-value docs: 95%
References docs: 0%

Topics

Software › StatisticalMethod › DimensionReduction

Software › AssayDomain › GeneExpression

Software › Technology › SingleCell

Software

Software › Technology › Spatial

Software › ResearchField › Transcriptomics

Software › WorkflowStep › Visualization

Depended on by (1)

Bioconductor (1)

SVP

People

Guangchuang Yu author maintainer cph
Noriaki Sato contributor
Shuangbin Xu author

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