crisprBase
Bioc currentBase functions and classes for CRISPR gRNA design
Release Lineage
Entered 3.15 · Apr 27, 2022
Current · Requires R 4.6
Description
Provides S4 classes for general nucleases, CRISPR nucleases, CRISPR nickases, and base editors.Several CRISPR-specific genome arithmetic functions are implemented to help extract genomic coordinates of spacer and protospacer sequences. Commonly-used CRISPR nuclease objects are provided that can be readily used in other packages. Both DNA- and RNA-targeting nucleases are supported.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
58 17 exported
Complexity
2.4 avg / 7 max
Call network
58 nodes / 67 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
6,042
Files
114
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
53
Internal functions
41
Recent export changes
Testing
Has tests
Yes
Test-to-code ratio
0.09
testthat edition
–
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
–
Unsafe pattern score
0
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.1
System requirements
–
C++ standard
–
License
MIT + file LICENSE
License flags
SPDX valid, OSI approved
History
Versions
9
First release
2022-04-26
Latest release
2026-04-28
Avg cadence
182 days
Cold removal rate
100%
Dep drift
1
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Help pages
- 27 (1 internal)
- Examples that run
- 100%16 run in a plain check (1 of them under a condition)
- Exported functions with examples
- 94%
- Documented parameters
- 97%
- Return-value docs
- 94%
- 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/crisprverse/crisprbase on 2026-10-21.
The repository owner accepts GitHub Sponsors
Datasets
| Name | Class | Size | Also in |
|---|---|---|---|
| AsCas12a | – | – | – |
| BE4max | – | – | – |
| CasRx | – | – | – |
| Csm | – | – | – |
| MAD7 | – | – | – |
| SaCas9 | – | – | – |
| SpCas9 | – | – | – |
| SpG | – | – | – |
| enAsCas12a | – | – | – |
| restrictionEnzymes | list | 4,916 elements | No other package |
3 internal objects are bundled for the package's own use and not listed here.
Topics
Depended on by (6)
Bioconductor (6)
People
- Jean-Philippe Fortin author maintainer
Cite
Cite this package
Run in R for the authors' entry:
citation("crisprBase")The package provides a citation file, so citation() returns the authors' own entry.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-10-25, which the citation names so these numbers can be found later. More on citing and the projects behind them.