scDblFinder
Bioc currentscDblFinder
Release Lineage
Entered 3.10 · Oct 30, 2019
Current · Requires R 4.6
Description
The scDblFinder package gathers various methods for the detection and handling of doublets/multiplets in single-cell sequencing data (i.e. multiple cells captured within the same droplet or reaction volume). It includes methods formerly found in the scran package, the new fast and comprehensive scDblFinder method, and a reimplementation of the Amulet detection method for single-cell ATAC-seq.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
74 23 exported
Complexity
8 avg / 89 max
Call network
74 nodes / 96 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
6,856
Files
60
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
26
Internal functions
51
Testing
Has tests
Yes
Test-to-code ratio
0.11
testthat edition
–
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
–
Unsafe pattern score
0
Dep constraint coverage
4%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.0
System requirements
–
C++ standard
–
License
GPL-3 + file LICENSE
License flags
SPDX valid, OSI approved
History
Versions
14
First release
2020-03-31
Latest release
2026-06-26
Avg cadence
182 days
Cold removal rate
100%
Dep drift
22
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Help pages
- 26
- Examples that run
- 100%21 run in a plain check
- Exported functions with examples
- 81%
- Documented parameters
- 95%
- Return-value docs
- 100%
- Help pages citing references
- 12%
- 4_computeDoubletDensity HTML
- 3_findDoubletClusters HTML
- 1_introduction HTML
- 5_recoverDoublets HTML
- 6_scATAC HTML
- 2_scDblFinder HTML
Repository practices
7 development-tooling and community-health practices detected across 4 families in the upstream repository
Checks run against github.com/plger/scdblfinder on 2026-10-18.
The R CMD check workflow runs on Linux
GitHub Pages site last deployed 2026-10-18 · The repository has a site deploy workflow
pkgdown site last built 2026-10-18
Datasets
| Name | Class | Size | Also in |
|---|---|---|---|
| example_fragments | data.frame | 8,845 × 4 | No other package |
Topics
Depended on by (3)
Bioconductor (3)
People
- Pierre-Luc Germain maintainer author
- Aaron Lun contributor
Cite
Cite this package
Run in R for the authors' entry:
citation("scDblFinder")The package provides a citation file, so citation() returns the authors' own entry.
It points to 10.12688/f1000research.73600.2.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-10-20, which the citation names so these numbers can be found later. More on citing and the projects behind them.