SEtools
Bioc currentSEtools: tools for working with SummarizedExperiment
Release Lineage
Entered 3.10 · Oct 30, 2019
Current · Requires R 4.6
Description
This includes a set of convenience functions for working with the SummarizedExperiment class. Note that plotting functions historically in this package have been moved to the sechm package (see vignette for details).
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
23 9 exported
Complexity
8 avg / 19 max
Call network
23 nodes / 17 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
1,514
Files
39
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
9
Internal functions
14
Testing
Has tests
No
Test-to-code ratio
0.00
testthat edition
–
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
0%
Unsafe pattern score
3
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.0
System requirements
–
C++ standard
–
License
GPL
License flags
not SPDX, not OSI
History
Versions
14
First release
2019-10-29
Latest release
2026-04-28
Avg cadence
182 days
Cold removal rate
100%
Dep drift
21
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Help pages
- 10
- Examples that run
- 100%7 run in a plain check
- Exported functions with examples
- 78%
- Documented parameters
- 99%
- Return-value docs
- 100%
- Help pages citing references
- 10%
- SEtools HTML
Repository practices
2 development-tooling and community-health practices detected across 1 family in the upstream repository
Checks run against github.com/plger/setools on 2026-10-11.
The R CMD check workflow runs on Linux, and on R-devel
Datasets
Topics
People
- Pierre-Luc Germain maintainer author
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("SEtools")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 v2026-10-19, which the citation names so these numbers can be found later. More on citing and the projects behind them.