motifTestR
Bioc currentPerform key tests for binding motifs in sequence data
Release Lineage
Entered 3.19 · May 1, 2024
Current · Requires R 4.6
Description
Taking a set of sequence motifs as PWMs, test a set of sequences for over-representation of these motifs, as well as any positional features within the set of motifs. Enrichment analysis can be undertaken using multiple statistical approaches. The package also contains core functions to prepare data for analysis, and to visualise results.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
38 12 exported
Complexity
4.6 avg / 10 max
Call network
38 nodes / 53 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
5,368
Files
63
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
13
Internal functions
26
Recent export changes
Testing
Has tests
Yes
Test-to-code ratio
0.24
testthat edition
3
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
–
Unsafe pattern score
0
Dep constraint coverage
6.7%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.5.0
System requirements
–
C++ standard
–
License
GPL-3
License flags
SPDX valid, OSI approved
History
Versions
5
First release
2024-06-03
Latest release
2026-06-30
Avg cadence
189 days
Cold removal rate
–
Dep drift
3
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Help pages
- 18 (1 internal)includes a package overview page
- Examples that run
- 100%17 run in a plain check
- Exported functions with examples
- 100%
- Documented parameters
- 85%
- Return-value docs
- 100%
- Help pages citing references
- 0%
Repository practices
2 development-tooling and community-health practices detected across 2 families in the upstream repository
Checks run against github.com/smped/motiftestr on 2026-10-21.
GitHub Pages site last deployed 2026-06-30
Datasets
| Name | Class | Size | Also in |
|---|---|---|---|
| ar_er_peaks | – | – | – |
| ar_er_seq | – | – | – |
| ex_pfm | list | 5 elements | No other package |
| hg19_mask | – | – | – |
| zr75_enh | – | – | – |
Topics
People
- Stevie Pederson author maintainer
Cite
Cite this package
Run in R for the authors' preferred citation:
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Cite the R Observatory
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