satuRn
Bioc currentScalable Analysis of Differential Transcript Usage for Bulk and Single-Cell RNA-sequencing Applications
Release Lineage
Entered 3.13 · May 20, 2021
Current · Requires R 4.6
Description
satuRn provides a higly performant and scalable framework for performing differential transcript usage analyses. The package consists of three main functions. The first function, fitDTU, fits quasi-binomial generalized linear models that model transcript usage in different groups of interest. The second function, testDTU, tests for differential usage of transcripts between groups of interest. Finally, plotDTU visualizes the usage profiles of transcripts in groups of interest.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
15 3 exported
Complexity
4.7 avg / 18 max
Call network
15 nodes / 10 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
2,381
Files
30
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
9
Internal functions
12
Testing
Has tests
Yes
Test-to-code ratio
0.09
testthat edition
–
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
–
Unsafe pattern score
0
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.1
System requirements
–
C++ standard
–
License
Artistic-2.0
License flags
SPDX valid, OSI approved
History
Versions
11
First release
2021-05-19
Latest release
2026-04-28
Avg cadence
182 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
- 9
- Examples that run
- 100%6 run in a plain check
- Exported functions with examples
- 100%
- Documented parameters
- 100%
- Return-value docs
- 100%
- Help pages citing references
- 0%
- satuRn - vignette HTML
Repository practices
10 development-tooling and community-health practices detected across 4 families in the upstream repository
Checks run against github.com/statomics/saturn on 2026-10-11.
The R CMD check workflow runs on Linux, macOS and Windows, and on R-devel
GitHub Pages site last deployed 2023-02-28 · The repository has a site deploy workflow
Datasets
| Name | Class | Size | Also in |
|---|---|---|---|
| Tasic_counts_vignette | matrix | 22,273 × 60 | No other package |
| Tasic_metadata_vignette | data.frame | 60 × 3 | No other package |
| sumExp_example | – | – | – |
Topics
Depended on by (1)
Bioconductor (1)
People
- Jeroen Gilis author maintainer
- Lieven Clement contributor
- Koen Van den Berge contributor
- Kristoffer Vitting-Seerup contributor
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("satuRn")The package provides a citation file that builds its entry when R runs it. Run citation() to see it.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-10-19, which the citation names so these numbers can be found later. More on citing and the projects behind them.