FlowSOM
Bioc currentUsing self-organizing maps for visualization and interpretation of cytometry data
Release Lineage
Entered 3.1 · Apr 17, 2015
Current · Requires R 4.6
Description
FlowSOM offers visualization options for cytometry data, by using Self-Organizing Map clustering and Minimal Spanning Trees.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
107 80 exported
Complexity
5.8 avg / 32 max
Call network
107 nodes / 199 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
12,748
Files
115
Compiled share
1.8%
Has compiled src
Yes
Language breakdown
API
Exported functions
81
Internal functions
22
Recent export changes
Testing
Has tests
No
Test-to-code ratio
0.00
testthat edition
–
Docs
Roxygen coverage
98.8%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
–
Unsafe pattern score
6
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.5
System requirements
–
C++ standard
–
License
GPL (>= 2)
License flags
SPDX valid, OSI approved
History
Versions
23
First release
2015-04-16
Latest release
2026-04-28
Avg cadence
182 days
Cold removal rate
100%
Dep drift
32
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Help pages
- 94 (1 internal)
- Examples that run
- 100%67 run in a plain check
- Exported functions with examples
- 81%
- Documented parameters
- 98%
- Return-value docs
- 99%
- Help pages citing references
- 2%
- FlowSOM PDF
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 |
|---|---|---|---|
| gatingResult | data.frame | 19,224 × 1 | No other package |
Topics
Depended on by (10)
Bioconductor (10)
Suggested by (2)
People
- Sofie Van Gassen author maintainer
- Sarah Bonte author
- Britt Callebaut author
- Artuur Couckuyt author
- Annelies Emmaneel author
- Robbe Fonteyn author
- Katrien Quintelier author
- Yvan Saeys author
Cite
Cite this package
Run in R for the authors' entry:
citation("FlowSOM")The package provides a citation file, so citation() returns the authors' own entry.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-10-24, which the citation names so these numbers can be found later. More on citing and the projects behind them.