crispRdesignR
Guide Sequence Design for CRISPR/Cas9
Description
Designs guide sequences for CRISPR/Cas9 genome editing and provides information on sequence features pertinent to guide efficiency. Sequence features include annotated off-target predictions in a user-selected genome and a predicted efficiency score based on the model described in Doench et al. (2016) <doi:10.1038/nbt.3437>. Users are able to import additional genomes and genome annotation files to use when searching and annotating off-target hits. All guide sequences and off-target data can be generated through the 'R' console with sgRNA_Design() or through 'crispRdesignR's' user interface with crispRdesignRUI(). CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and the associated protein Cas9 refer to a technique used in genome editing.
Downloads
702
Last 30 days
4723rd
2.3K
Last 90 days
8.7K
Last year
Trend: -9.3% (30d vs prior 30d)
17
Last 30 days
59
Last 90 days
162
Last year
Trend: +13.3% (30d vs prior 30d)
CRAN Check Status
Show all 13 flavors
| Flavor | Status |
|---|---|
| r-devel-linux-x86_64-debian-clang | OK |
| r-devel-linux-x86_64-debian-gcc | OK |
| r-devel-linux-x86_64-fedora-clang | NOTE |
| r-devel-linux-x86_64-fedora-gcc | NOTE |
| r-devel-windows-x86_64 | OK |
| r-oldrel-macos-arm64 | OK |
| r-oldrel-macos-x86_64 | OK |
| r-oldrel-windows-x86_64 | OK |
| r-patched-linux-x86_64 | OK |
| r-release-linux-x86_64 | OK |
| r-release-macos-arm64 | OK |
| r-release-macos-x86_64 | OK |
| r-release-windows-x86_64 | OK |
Check details (2 non-OK)
dependencies in R code
Namespace in Imports field not imported from: ‘DT’ All declared Imports should be used.
dependencies in R code
Namespace in Imports field not imported from: ‘DT’ All declared Imports should be used.
Check History
NOTE 11 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE Jun 9, 2026
dependencies in R code
Namespace in Imports field not imported from: ‘DT’ All declared Imports should be used.
dependencies in R code
Namespace in Imports field not imported from: ‘DT’ All declared Imports should be used.
ERROR 10 OK · 2 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE Jun 8, 2026
package dependencies
Package required but not available: ‘rtracklayer’ Package suggested but not available for checking: ‘BSgenome.Scerevisiae.UCSC.sacCer3’ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual.
dependencies in R code
Namespace in Imports field not imported from: ‘DT’ All declared Imports should be used.
dependencies in R code
Namespace in Imports field not imported from: ‘DT’ All declared Imports should be used.
NOTE 11 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE May 10, 2026
dependencies in R code
Namespace in Imports field not imported from: ‘DT’ All declared Imports should be used.
dependencies in R code
Namespace in Imports field not imported from: ‘DT’ All declared Imports should be used.
ERROR 10 OK · 2 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE May 3, 2026
dependencies in R code
Namespace in Imports field not imported from: ‘DT’ All declared Imports should be used.
dependencies in R code
Namespace in Imports field not imported from: ‘DT’ All declared Imports should be used.
package dependencies
Package required but not available: ‘rtracklayer’ Package suggested but not available for checking: ‘BSgenome.Scerevisiae.UCSC.sacCer3’ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual.
NOTE 10 OK · 4 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE Mar 10, 2026
dependencies in R code
Namespace in Imports field not imported from: ‘DT’ All declared Imports should be used.
dependencies in R code
Namespace in Imports field not imported from: ‘DT’ All declared Imports should be used.
package dependencies
Package suggested but not available for checking: ‘BSgenome.Scerevisiae.UCSC.sacCer3’
package dependencies
Package suggested but not available for checking: ‘BSgenome.Scerevisiae.UCSC.sacCer3’
Code & tests
Open call graph →Line coverage
–
Expression
–
Tests / Examples
–
Functions
6 6 exported
Complexity
24.5 avg / 58 max
Call network
6 nodes / 2 edges
Test coverage has not been measured for this package yet; nodes fall back to a neutral fill.
Lowest coverage
Per-function coverage is not measured for this package yet.
Code
Structure
Lines of code
1,502
Files
22
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
6
Internal functions
0
Recent export changes
Testing & CI
Has tests
No
Test-to-code ratio
0.00
testthat edition
–
CI present
No
CI type
[]
PR gated
No
Docs
Return-value doc rate
100%
\dontrun example ratio
0%
Roxygen coverage
100%
Has pkgdown
No
NEWS present
No
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
100%
Unsafe pattern score
0
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
2.10
System requirements
–
C++ standard
–
License
GPL-3
License flags
SPDX valid, OSI approved
History
Versions
3
First release
2020-05-26
Latest release
2023-04-12
Avg cadence
526 days
Cold removal rate
–
Dep drift
0
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/cran-code-metrics.