SpaceTrooper
Bioc currentSpaceTrooper performs Quality Control analysis of Image-Based spatial
Release Lineage
Entered 3.22 · Oct 30, 2025
Current · Requires R 4.6
Description
SpaceTrooper performs Quality Control analysis using data driven GLM models of Image-Based spatial data, providing exploration plots, QC metrics computation, outlier detection. It implements a GLM strategy for the detection of low quality cells in imaging-based spatial data (Transcriptomics and Proteomics). It additionally implements several plots for the visualization of imaging based polygons through the ggplot2 package.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
65 40 exported
Complexity
3.4 avg / 15 max
Call network
65 nodes / 66 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
7,881
Files
110
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
40
Internal functions
25
Recent export changes
Testing
Has tests
Yes
Test-to-code ratio
0.02
testthat edition
3
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
0%
Unsafe pattern score
0
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.4.0
System requirements
–
C++ standard
–
License
MIT + file LICENSE
License flags
SPDX valid, OSI approved
History
Versions
2
First release
2025-12-12
Latest release
2026-04-28
Avg cadence
137 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
- 57 (18 internal)
- Examples that run
- 100%39 run in a plain check
- Exported functions with examples
- 100%
- Documented parameters
- 94%
- Return-value docs
- 100%
- Help pages citing references
- 0% with a bibliography file
Repository practices
3 development-tooling and community-health practices detected across 2 families in the upstream repository
Checks run against github.com/drighelli/spacetrooper on 2026-10-22.
The R CMD check workflow runs on Linux, macOS and Windows, and on R-devel
Datasets
| Name | Class | Size | Also in |
|---|---|---|---|
| DBKero-polygons | data.frame | 23,000 × 6 | No other package |
| DBKero_exprMat_file | data.frame | 906 × 1,012 | No other package |
| DBKero_fov_positions_file | data.frame | 1 × 3 | No other package |
| DBKero_metadata_file | data.frame | 905 × 20 | No other package |
| HumanUterineCancerPatient2_cell_by_gene | data.frame | 50 × 11 | No other package |
| HumanUterineCancerPatient2_cell_metadata | data.frame | 50 × 25 | No other package |
| S01-polygons | data.frame | 26,595 × 7 | No other package |
| S01_exprMat_file | data.frame | 1,793 × 71 | No other package |
| S01_fov_positions_file | data.frame | 1 × 5 | No other package |
| S01_metadata_file | data.frame | 1,793 × 59 | No other package |
| cells | data.frame | 6 × 10 | 2 packages |
| labels_tiny | data.frame | 904 × 3 | No other package |
| metadata | data.frame | 4 × 12 | No other package |
Topics
Depended on by (1)
Bioconductor (1)
People
- Dario Righelli author maintainer
- Benedetta Banzi author
- Silvio Bicciato author
- Mattia Forcato contributor
- Matteo Marchionni author
- Davide Risso contributor
- Oriana Romano contributor
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("SpaceTrooper")This package has no citation file, so citation() returns this entry built from DESCRIPTION.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-10-23, which the citation names so these numbers can be found later. More on citing and the projects behind them.