crispRdesignR

1.1.7

Guide Sequence Design for CRISPR/Cas9

0packages depend

8.5Kdownloads / year

–test coverage

11/13checks pass

Overview

About

Maintained by Dylan BeeberFirst published 2020-05-263 releasesCRAN page ↗

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.

Install

R (CRAN)Ubuntu (r2u)

install.packages("crispRdesignR", repos = "https://cloud.r-project.org/")

Installs the current CRAN release. Prebuilt binaries on Windows and macOS.

Release

# enable cranapt (r2u) if it is not already set up, then install
grep -rqs r2u.stat.illinois.edu /etc/apt/sources.list /etc/apt/sources.list.d/ \
  || curl -fsSL https://raw.githubusercontent.com/eddelbuettel/r2u/master/inst/scripts/add_cranapt_noble.sh | sudo bash
sudo apt install -y r-cran-crisprdesignr

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled.

bspm (used by r2u) also needs make: sudo apt install make

Health

CRAN checks

2NOTE11OK

Failing flavors

NOTE r-devel-linux-x86_64-fedora-clang
NOTE r-devel-linux-x86_64-fedora-gcc

Slowest check: 1.6 min · r-devel-linux-x86_64-fedora-clang

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

Dependencies · direct

Check history

NOTE2026-06-09
11 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-08
10 OK · 2 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
NOTE2026-05-10
11 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-05-03
10 OK · 2 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
NOTE2026-03-10
10 OK · 4 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 749 wordsVignettesNopkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 100%
Return-value docs: 100%
References docs: 0%

Downloads

8.5K

CRAN downloads in the past year

Rank #4,548 · ~23/day · ~705/mo

Releases R versions

Daily download trend is not available in this view yet.

50330 days

2K90 days

8.5K1 year

Compare downloads with other packages →

Also on162 r2u

Repository

GitHub ↗ dylanbeeber/crisprdesignr

16Stars

9Forks

6Open issues

0Open PRs

0Releases

277Commits

1Contributors

277 commits · Last activity 2023-04-13 · 0% stars, 30d

Stars over time

2024-10-30 · 142026-07-07 · 16

Repository practices

Upstream repositoryBeta

Checks run against github.com/dylanbeeber/crisprdesignr on 2026-07-19.

No development-tooling practices detected in the upstream repository.

How this is detected·Detection ruleset v1 (2026-07-18)

Dependencies

Declared dependencies

13 external dependencies (excludes base and recommended)

Depends (1)

R >= 2.10

Imports (12)

Biostrings gbm GenomicRanges BiocGenerics IRanges GenomeInfoDb S4Vectors rtracklayer stringr vtreat shiny DT

LinkingTo (0)

none

Suggests (1)

BSgenome.Scerevisiae.UCSC.sacCer3

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (2)

Maintainer (1)

Dylan Beeber

Author, Maintainer

Authors (2)

Dylan Beeber

Author, Maintainer

Frederic Chain

Author

Package Timeline

3 releases. Pick two to compare their code metrics. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
1.1.7Latest
2023-04-12 · current release · diff ↗
unarchivedReturned to CRAN
2023-04-12
archivedRemoved from CRAN
2022-12-19
issues were not corrected in time
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
1.1.6
2021-01-11 · diff ↗
1.1.5
2020-05-26
R
R 4.0.0 released · 2020-04-24

Package metadata

First published: 2020-05-26
Total releases: 3 / 6 yrs
License: GPL-3 OSI
Minimum R: ≥ 2.10
Download size: 1.2 MB
Installed size: not tracked yet
With dependencies: not tracked yet

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