EGSEAdata
Bioc currentGene set collections for the EGSEA package
Release Lineage
Entered 3.3 · May 4, 2016
Current · Requires R 4.6
Description
This package includes gene set collections that are used for the Ensemble of Gene Set Enrichment Analyses (EGSEA) method for gene set testing. It includes Human and Mouse versions of the MSidDB (Subramanian, et al. (2005) PNAS, 102(43):15545-15550) and GeneSetDB (Araki, et al. (2012) FEBS Open Bio, 2:76-82) collections.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
4 1 exported
Complexity
4.8 avg / 9 max
Call network
4 nodes / 4 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
1,118
Files
42
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
1
Internal functions
3
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
–
Unsafe pattern score
0
Dep constraint coverage
–
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
3.4
System requirements
–
C++ standard
–
License
file LICENSE
License flags
SPDX valid, not OSI
History
Versions
21
First release
2016-08-02
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
- 18includes a package overview page
- Examples that run
- 100%1 run in a plain check
- Exported functions with examples
- 100%
- Documented parameters
- 67%
- Return-value docs
- 100%
- Help pages citing references
- 6%
Repository practices
Checks read the Bioconductor git repository (git.bioconductor.org), branch RELEASE_3_23.
No development-tooling practices detected in the Bioconductor git repository.
Datasets
| Name | Class | Size | Also in |
|---|---|---|---|
| Mm.H | list | 50 elements | No other package |
| Mm.c2 | list | 4,729 elements | No other package |
| Mm.c3 | list | 836 elements | No other package |
| Mm.c4 | list | 858 elements | No other package |
| Mm.c5 | list | 6,166 elements | No other package |
| Mm.c6 | list | 189 elements | No other package |
| Mm.c7 | list | 4,872 elements | No other package |
| gsetdb.human | list | 4 elements | No other package |
| gsetdb.mouse | list | 4 elements | No other package |
| gsetdb.rat | list | 4 elements | No other package |
| il13.data | list | 2 elements | No other package |
| il13.data.cnt | list | 5 elements | No other package |
| il13.gsa | – | – | – |
| kegg.pathways | list | 3 elements | No other package |
| mam.data | list | 2 elements | No other package |
| msigdb | list | 18,891 elements | No other package |
Topics
Depended on by (1)
Bioconductor (1)
People (from the free-text Author field)
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("EGSEAdata")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.