ReactomePA
Bioc currentReactome Pathway Analysis
Release Lineage
Entered 2.10 · Apr 2, 2012
Current · Requires R 4.6
Description
This package provides functions for pathway analysis based on REACTOME pathway database. It implements enrichment analysis, gene set enrichment analysis and several functions for visualization. This package is not affiliated with the Reactome team.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
10 4 exported
Complexity
2.5 avg / 6 max
Call network
10 nodes / 9 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
903
Files
27
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
12
Internal functions
6
Recent export changes
Testing
Has tests
Yes
Test-to-code ratio
0.02
testthat edition
–
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
–
Unsafe pattern score
6
Dep constraint coverage
20%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
3.4.0
System requirements
–
C++ standard
–
License
GPL-2
License flags
SPDX valid, OSI approved
History
Versions
29
First release
2012-05-24
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
- 9 (2 internal)includes a package overview page
- Examples that run
- 50%1 run in a plain check · 1 never run
- Exported functions with examples
- 40%
- Documented parameters
- 100%
- Return-value docs
- 80%
- Help pages citing references
- 0%
Repository practices
4 development-tooling and community-health practices detected across 3 families in the upstream repository
Checks run against github.com/guangchuangyu/reactomepa on 2026-10-21.
GitHub Pages site last deployed 2026-09-26
Topics
Depended on by (14)
Show all 26 packagesHide all 26 packages
Bioconductor (14)
Suggested by (12)
People
- Guangchuang Yu author maintainer
- Vladislav Petyuk contributor
Cite
Cite this package
Run in R for the authors' entry:
citation("ReactomePA")The package provides a citation file, so citation() returns the authors' own entry.
It points to 10.1039/c5mb00663e.
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.