Biostrings
Bioc currentEfficient manipulation of biological strings
Release Lineage
Entered 1.4 · May 17, 2004
Current · Requires R 4.6
Description
Memory efficient string containers, string matching algorithms, and other utilities, for fast manipulation of large biological sequences or sets of sequences.
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
660 65 exported
Complexity
3.8 avg / 39 max
Call network
660 nodes / 846 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
38,130
Files
225
Compiled share
30.7%
Has compiled src
Yes
Language breakdown
API
Exported functions
167
Internal functions
225
Recent export changes
Testing & CI
Has tests
Yes
Test-to-code ratio
0.30
testthat edition
–
CI present
Yes
CI type
["github-actions"]
PR gated
Yes
Docs
Roxygen coverage
98.8%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
–
Unsafe pattern score
0
Dep constraint coverage
44.4%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.1.0
System requirements
–
C++ standard
–
License
Artistic-2.0
License flags
SPDX valid, OSI approved
History
Versions
45
First release
2004-08-23
Latest release
2026-05-21
Avg cadence
182 days
Cold removal rate
99.3%
Dep drift
21
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
- 84%
- Return-value docs
- 66%
- References docs
- 19%
Topics
Depended on by (690)
Bioconductor (620)
CRAN (70)
People
- Hervé Pagès author maintainer
- Patrick Aboyoun author
- Vince Carey contributor
- Saikat DebRoy author
- Nicolas Delhomme contributor
- Felix Ernst contributor
- Robert Gentleman author
- Wolfgang Huber contributor
- Beryl Kanali contributor
- Haleema Khan contributor
- Aidan Lakshman contributor
- Kieran O'Neill contributor
- Valerie Obenchain contributor
- Marcel Ramos contributor
- Albert Vill contributor
- Jen Wokaty contributor
- Erik Wright contributor
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("Biostrings")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 v2026-08-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.