methylGSA
Bioc currentGene Set Analysis Using the Outcome of Differential Methylation
Release Lineage
Entered 3.8 · Oct 31, 2018
Current · Requires R 4.6
Description
The main functions for methylGSA are methylglm and methylRRA. methylGSA implements logistic regression adjusting number of probes as a covariate. methylRRA adjusts multiple p-values of each gene by Robust Rank Aggregation. For more detailed help information, please see the vignette.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
9 8 exported
Complexity
9.7 avg / 24 max
Call network
9 nodes / 8 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
2,130
Files
42
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
8
Internal functions
1
Recent export changes
Testing
Has tests
Yes
Test-to-code ratio
0.14
testthat edition
–
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
0%
Unsafe pattern score
0
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
3.5
System requirements
–
C++ standard
–
License
GPL-2
License flags
SPDX valid, OSI approved
History
Versions
16
First release
2019-04-11
Latest release
2026-04-28
Avg cadence
182 days
Cold removal rate
–
Dep drift
4
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Help pages
- 12
- Examples that run
- 88%7 run in a plain check · 1 never run
- Exported functions with examples
- 100%
- Documented parameters
- 100%
- Return-value docs
- 100%
- Help pages citing references
- 67%
Repository practices
Checks run against github.com/reese3928/methylgsa on 2026-10-11.
No development-tooling practices detected in the upstream repository.
Datasets
Topics
People
- Xu Ren author maintainer
- Pei Fen Kuan author
Cite
Cite this package
Run in R for the authors' entry:
citation("methylGSA")The package provides a citation file, so citation() returns the authors' own entry.
It points to 10.1093/bioinformatics/bty892.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-10-18, which the citation names so these numbers can be found later. More on citing and the projects behind them.