CytoML
Bioc currentA GatingML Interface for Cross Platform Cytometry Data Sharing
Release Lineage
Entered 3.4 · Oct 18, 2016
Current · Requires R 4.6
Description
Uses platform-specific implemenations of the GatingML2.0 standard to exchange gated cytometry data with other software platforms.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
184 28 exported
Complexity
4.1 avg / 55 max
Call network
184 nodes / 283 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
11,392
Files
216
Compiled share
2.7%
Has compiled src
Yes
Language breakdown
API
Exported functions
30
Internal functions
137
Recent export changes
Testing
Has tests
Yes
Test-to-code ratio
0.31
testthat edition
–
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
0%
Unsafe pattern score
0
Dep constraint coverage
22.7%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
–
System requirements
3 externalxml2, GNU make, C++17
C++ standard
C++17
License
AGPL-3.0-only
License flags
not SPDX, not OSI
History
Versions
20
First release
2016-12-30
Latest release
2026-04-28
Avg cadence
181 days
Cold removal rate
91.7%
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
- 40
- Examples that run
- 24%4 run in a plain check · 13 never run
- Exported functions with examples
- 55%
- Documented parameters
- 100%
- Return-value docs
- 85%
- Help pages citing references
- 0%
Repository practices
7 development-tooling and community-health practices detected across 3 families in the upstream repository
Checks run against github.com/rglab/cytoml on 2026-10-21.
The R CMD check workflow runs on Linux, macOS and Windows, and on R-devel
GitHub Pages site last deployed 2022-08-21
Datasets
| Name | Class | Size | Also in |
|---|---|---|---|
| cytotrol_tcell_cytobank_logt_counts | data.frame | 5 × 2 | No other package |
Topics
Suggested by (3)
People (from the free-text Author field)
Cite
Cite this package
Run in R for the authors' entry:
citation("CytoML")The package provides a citation file, so citation() returns the authors' own entry.
It points to 10.1002/cyto.a.23663.
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.