CelliD
Bioc currentUnbiased Extraction of Single Cell gene signatures using Multiple Correspondence Analysis
Release Lineage
Entered 3.13 · May 20, 2021
Current · Requires R 4.6
Description
CelliD is a clustering-free multivariate statistical method for the robust extraction of per-cell gene signatures from single-cell RNA-seq. CelliD allows unbiased cell identity recognition across different donors, tissues-of-origin, model organisms and single-cell omics protocols. The package can also be used to explore functional pathways enrichment in single cell data.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
73 15 exported
Complexity
1.8 avg / 14 max
Call network
73 nodes / 68 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
3,897
Files
60
Compiled share
3.7%
Has compiled src
Yes
Language breakdown
API
Exported functions
15
Internal functions
24
Testing
Has tests
Yes
Test-to-code ratio
0.09
testthat edition
–
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
–
Unsafe pattern score
0
Dep constraint coverage
4.3%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.1
System requirements
–
C++ standard
C++11
License
GPL-3 + file LICENSE
License flags
SPDX valid, OSI approved
History
Versions
11
First release
2021-05-19
Latest release
2026-04-28
Avg cadence
182 days
Cold removal rate
–
Dep drift
0
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Help pages
- 29includes a package overview page
- Examples that run
- 100%15 run in a plain check
- Exported functions with examples
- 100%
- Documented parameters
- 100%
- Return-value docs
- 100%
- Help pages citing references
- 17%
- CelliD Vignette HTML
Repository practices
Checks read the Bioconductor git repository (git.bioconductor.org), branch RELEASE_3_23.
No development-tooling practices detected in the Bioconductor git repository.
Datasets
| Name | Class | Size | Also in |
|---|---|---|---|
| Hallmark | list | 50 elements | No other package |
| HgProteinCodingGenes | vector | 19,308 elements | No other package |
| MgProteinCodingGenes | vector | 21,914 elements | No other package |
| seuratPbmc | – | – | – |
Topics
People
- Akira Cortal author maintainer
- Antonio Rausell author contributor
Cite
Cite this package
Run in R for the authors' entry:
citation("CelliD")The package provides a citation file, so citation() returns the authors' own entry.
It points to 10.1101/2020.07.23.215525.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-10-19, which the citation names so these numbers can be found later. More on citing and the projects behind them.