motifStack
Bioc currentPlot stacked logos for single or multiple DNA, RNA and amino acid sequence
Release Lineage
Entered 2.11 · Oct 3, 2012
Current · Requires R 4.6
Description
The motifStack package is designed for graphic representation of multiple motifs with different similarity scores. It works with both DNA/RNA sequence motif and amino acid sequence motif. In addition, it provides the flexibility for users to customize the graphic parameters such as the font type and symbol colors.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
99 32 exported
Complexity
9.1 avg / 114 max
Call network
99 nodes / 103 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
12,497
Files
125
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
33
Internal functions
67
Recent export changes
Testing
Has tests
Yes
Test-to-code ratio
0.00
testthat edition
–
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
50%
Unsafe pattern score
2
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
2.15.1
System requirements
–
C++ standard
–
License
GPL (>= 2)
License flags
SPDX valid, OSI approved
History
Versions
28
First release
2013-03-06
Latest release
2026-04-28
Avg cadence
181 days
Cold removal rate
100%
Dep drift
17
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Help pages
- 53includes a package overview page
- Examples that run
- 100%37 run in a plain check (13 of them under a condition)
- Exported functions with examples
- 97%
- Documented parameters
- 95%
- Return-value docs
- 94%
- Help pages citing references
- 2%
- motifStack Vignette HTML
Repository practices
Checks read the Bioconductor git repository (git.bioconductor.org), branch RELEASE_3_23.
No development-tooling practices detected in the Bioconductor git repository.
Datasets
Topics
Depended on by (8)
Show all 13 packagesHide all 13 packages
Bioconductor (8)
Suggested by (5)
People
- Jianhong Ou author maintainer
- Michael Brodsky contributor
- Lihua Julie Zhu Developer author
- Scot Wolfe contributor
Cite
Cite this package
Run in R for the authors' entry:
citation("motifStack")The package provides a citation file, so citation() returns the authors' own entry.
It points to 10.1038/nmeth.4555.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-10-17, which the citation names so these numbers can be found later. More on citing and the projects behind them.