RbowtieCuda
Bioc currentAn R Wrapper for nvBowtie and nvBWT, a rewritten version of Bowtie2 for cuda
Release Lineage
Entered 3.21 · Apr 16, 2025
Current · Requires R 4.6
Description
This package provides an R wrapper for the popular Bowtie2 sequencing read aligner, optimized to run on NVIDIA graphics cards. It includes wrapper functions that enable both genome indexing and alignment to the generated indexes, ensuring high performance and ease of use within the R environment.
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
2496 6 exported
Complexity
4 avg / 14 max
Call network
2496 nodes / 3335 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
180,717
Files
793
Compiled share
99.6%
Has compiled src
Yes
Language breakdown
API
Exported functions
6
Internal functions
1
Recent export changes
Testing & CI
Has tests
Yes
Test-to-code ratio
0.00
testthat edition
3
CI present
No
CI type
[]
PR gated
No
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
0%
Unsafe pattern score
0
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.5.0
System requirements
9
C++ standard
–
License
BSD_3_clause + file LICENSE
License flags
SPDX valid, OSI approved
History
Versions
3
First release
2025-10-12
Latest release
2026-05-09
Avg cadence
105 days
Cold removal rate
–
Dep drift
0
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Examples that run
- 100%
- Documented parameters
- 100%
- Return-value docs
- 100%
- References docs
- 50%
Topics
People
- Franck RICHARD author maintainer
- Jacopo Pantaleoni author
- Samuel Simon-Sanchez author
- Nuno Subtil author