tidySingleCellExperiment
Bioc currentBrings SingleCellExperiment to the Tidyverse
Release Lineage
Entered 3.12 · Oct 28, 2020
Current · Requires R 4.6
Description
'tidySingleCellExperiment' is an adapter that abstracts the 'SingleCellExperiment' container in the form of a 'tibble'. This allows *tidy* data manipulation, nesting, and plotting. For example, a 'tidySingleCellExperiment' is directly compatible with functions from 'tidyverse' packages `dplyr` and `tidyr`, as well as plotting with `ggplot2` and `plotly`. In addition, the package provides various utility functions specific to single-cell omics data analysis (e.g., aggregation of cell-level data to pseudobulks).
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
86 3 exported
Complexity
2 avg / 9 max
Call network
86 nodes / 103 edges
Test coverage is not measured for Bioconductor packages; nodes fall back to a neutral fill.
Call graph
Open call graph →Lowest coverage
Per-function coverage is not measured for this package yet.
Code
Structure
Lines of code
8,212
Files
96
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
4
Internal functions
81
Recent export changes
Testing & CI
Has tests
Yes
Test-to-code ratio
0.19
testthat edition
–
CI present
Yes
CI type
["github-actions","travis"]
PR gated
Yes
Docs
Roxygen coverage
75%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
–
Unsafe pattern score
0
Dep constraint coverage
4.2%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.4.0
System requirements
–
C++ standard
–
License
GPL-3
License flags
SPDX valid, OSI approved
History
Versions
12
First release
2020-10-27
Latest release
2026-04-28
Avg cadence
186 days
Cold removal rate
100%
Dep drift
11
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Examples that run
- 100%
- Documented parameters
- 93%
- Return-value docs
- 100%
- References docs
- 82%
Topics
Depended on by (6)
Bioconductor (6)
People
- Stefano Mangiola author maintainer
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("tidySingleCellExperiment")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.
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.