EpiTxDb
Bioc currentStoring and accessing epitranscriptomic information using the AnnotationDbi interface
Release Lineage
Entered 3.11 · Apr 28, 2020
Current · Requires R 4.6
Description
EpiTxDb facilitates the storage of epitranscriptomic information. More specifically, it can keep track of modification identity, position, the enzyme for introducing it on the RNA, a specifier which determines the position on the RNA to be modified and the literature references each modification is associated with.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
148 12 exported
Complexity
2.5 avg / 25 max
Call network
148 nodes / 179 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
5,843
Files
47
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
13
Internal functions
136
Testing
Has tests
Yes
Test-to-code ratio
0.18
testthat edition
–
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
–
Unsafe pattern score
0
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
Artistic-2.0
License flags
SPDX valid, OSI approved
History
Versions
13
First release
2020-04-27
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
- 13 (1 internal)includes a package overview page
- Examples that run
- 89%8 run in a plain check · 1 never run
- Exported functions with examples
- 75%
- Documented parameters
- 94%
- Return-value docs
- 100%
- Help pages citing references
- 15%
- EpiTxDb-creation HTML
- EpiTxDb HTML
Repository practices
5 development-tooling and community-health practices detected across 3 families in the upstream repository
Checks run against github.com/felixernst/epitxdb on 2026-10-21.
The R CMD check workflow runs on Linux, macOS and Windows, and on R-devel
GitHub Pages site last deployed 2025-10-05 · The repository has a site deploy workflow
Datasets
| Name | Class | Size | Also in |
|---|---|---|---|
| rmbase_data | data.frame | 38 × 6 | No other package |
Topics
Depended on by (3)
Bioconductor (3)
People
- Felix G.M. Ernst author maintainer
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("EpiTxDb")The package provides a citation file that builds its entry when R runs it. Run citation() to see it.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-10-25, which the citation names so these numbers can be found later. More on citing and the projects behind them.