StatescopeR
Bioc currentStatescopeR framework for discovery of cell states from cell type-specific gene expression profiles inferred from bulk mRNA profiles
Release Lineage
Entered 3.23 · Apr 29, 2026
Current · Requires R 4.6
Description
StatescopeR is an R wrapper around Statescope, a computational framework designed to discover cell states from cell type-specific gene expression profiles inferred from bulk RNA profiles.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
10 10 exported
Complexity
3.9 avg / 6 max
Call network
10 nodes / 0 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
1,843
Files
46
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
10
Internal functions
0
Recent export changes
Testing
Has tests
Yes
Test-to-code ratio
0.09
testthat edition
3
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
25%
Unsafe pattern score
0
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.6.0
System requirements
–
C++ standard
–
License
MIT + file LICENSE
License flags
SPDX valid, OSI approved
History
Versions
1
First release
2026-05-20
Latest release
2026-05-20
Avg cadence
–
Cold removal rate
–
Dep drift
0
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Help pages
- 12 (1 internal)includes a package overview page
- Examples that run
- 100%10 run in a plain check (5 of them under a condition)
- Exported functions with examples
- 100%
- Documented parameters
- 100%
- Return-value docs
- 100%
- Help pages citing references
- 0%
- Deprecation warning of aggregrateAcrossCells and fitTrendVar fix
From NEWS.md in the release
Repository practices
4 development-tooling and community-health practices detected across 3 families in the upstream repository
Checks run against github.com/tgac-vumc/statescoper on 2026-10-21.
The R CMD check workflow runs on Linux, macOS and Windows, and on R-devel
Datasets
| Name | Class | Size | Also in |
|---|---|---|---|
| Statescope | – | – | – |
| prior | – | – | – |
| selected_genes | vector | 3 elements | No other package |
| signature | – | – | – |
| true_fractions | – | – | – |
Topics
People
- Mischa Steketee author maintainer
- KWF Kankerbestrijding funder
- Yongsoo Kim thesis advisor
- Bauke Ylstra thesis advisor
Cite
Cite this package
Run in R for the authors' entry:
citation("StatescopeR")The package provides a citation file, so citation() returns the authors' own entry.
It points to 10.21203/rs.3.rs-4252952/v1.
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.