dmGsea
Bioc currentEfficient Gene Set Enrichment Analysis for DNA Methylation Data
Release Lineage
Entered 3.22 · Oct 30, 2025
Current · Requires R 4.6
Description
The R package dmGsea provides efficient gene set enrichment analysis specifically for DNA methylation data. It addresses key biases, including probe dependency and varying probe numbers per gene. The package supports Illumina 450K, EPIC, and mouse methylation arrays. Users can also apply it to other omics data by supplying custom probe-to-gene mapping annotations. dmGsea is flexible, fast, and well-suited for large-scale epigenomic studies.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
41 10 exported
Complexity
3.6 avg / 10 max
Call network
41 nodes / 54 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
1,872
Files
28
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
10
Internal functions
31
Recent export changes
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
0%
Unsafe pattern score
6
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
3.5.0
System requirements
–
C++ standard
–
License
Artistic-2.0
License flags
SPDX valid, OSI approved
History
Versions
2
First release
2026-01-12
Latest release
2026-09-23
Avg cadence
254 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
- 11
- Examples that run
- 100%10 run in a plain check
- Exported functions with examples
- 100%
- Documented parameters
- 100%
- Return-value docs
- 100%
- Help pages citing references
- 45%
- dmGsea User's Guide HTML
Repository practices
Repository github.com/bioconductor/dmgsea is linked, but repository-practices checks have not run for it yet.
Topics
People
- Zongli Xu maintainer author
- Alison Motsinger-Reif author
- Liang Niu author
Cite
Cite this package
Run in R for the authors' entry:
citation("dmGsea")The package provides a citation file, so citation() returns the authors' own entry.
It points to 10.1093/bioinformatics/btaf422.
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.