Rbowtie
Bioc currentR bowtie wrapper
Release Lineage
Entered 2.9 · Nov 1, 2011
Current · Requires R 4.6
Description
This package provides an R wrapper around the popular bowtie short read aligner and around SpliceMap, a de novo splice junction discovery and alignment tool. The package is used by the QuasR bioconductor package. We recommend to use the QuasR package instead of using Rbowtie directly.
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
1077 0 exported
Complexity
12.9 avg / 40 max
Call network
1077 nodes / 2168 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
62,379
Files
157
Compiled share
97.8%
Has compiled src
Yes
Language breakdown
API
Exported functions
6
Internal functions
3
Testing & CI
Has tests
Yes
Test-to-code ratio
0.66
testthat edition
–
CI present
Yes
CI type
["github-actions"]
PR gated
No
Docs
Roxygen coverage
–
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
50%
Unsafe pattern score
0
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
–
System requirements
1
C++ standard
–
License
Artistic-2.0 | file LICENSE
License flags
SPDX valid, not OSI
History
Versions
30
First release
2011-10-31
Latest release
2026-04-28
Avg cadence
182 days
Cold removal rate
–
Dep drift
1
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Topics
Depended on by (7)
Bioconductor (7)
People
- Michael Stadler author maintainer
- Florian Hahne author
- Anita Lerch author
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("Rbowtie")This is what citation() produces when a package has no citation file of its own. If it prints something else, use that.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-08-23, which the citation names so these numbers can be found later. More on citing and the projects behind them.