R Observatory: Metrics for crispRdesignR version 1.1.7

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

crispRdesignR

1.1.7Package record

Guide Sequence Design for CRISPR/Cas9

0packages depend

7.8Kdownloads / year

–test coverage

11/13flavors OK

Overview

About

Maintained by Dylan BeeberCRAN page ↗GitHub ↗

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. We list this channel from recorded r2u download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

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

Health

CRAN checks

2NOTE11OK

Check messages

NOTEdependencies in R coder-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc

Namespace in Imports field not imported from:
  ‘DT’
All declared Imports should be used.

CRAN check page ↗

Slowest check: 1.5 min · r-oldrel-windows-x86_64

Status changes

NOTE11 OK, 2 NOTE2026-06-09
ERROR10 OK, 2 NOTE, 1 ERROR2026-06-08
NOTE11 OK, 2 NOTE2026-05-10
ERROR10 OK, 2 NOTE, 1 ERROR2026-05-03
NOTE10 OK, 4 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.1.7

READMEYes · 749 wordsVignettesNoNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 6
Examples that run: 100%4 run in a plain check
Exported functions with examples: 67%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 0%

How these are measured

Downloads

7.8K

CRAN downloads in the past year

Rank #6,757 · ~21/day · ~650/mo

Releases R versions

Daily download trend is not available in this view yet.

43130 days

1.2K90 days

7.8K1 year

Compare downloads with other packages →

Also on159 r2u

How downloads are counted

Repository

dylanbeeber/crisprdesignr ↗Account: dylanbeeber

16Stars

9Forks

6Open issues

0Open PRs

0Releases

277Commits

1Commit identities

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

Responsiveness

How these are sampled

PRs merged (all time): not measured
Median days to close, 50 most recently updated closed issues: 17
Median days to close, 50 most recently updated closed PRs: not measured

Stars over time

2025-09-13 · 152026-07-07 · 16

How these are measured

PracticesBeta

Checks run against github.com/dylanbeeber/crisprdesignr on 2026-10-11.

No development-tooling practices detected in the upstream repository.

How this is detected·Detection ruleset v3 (2026-09-26)

Dependencies

Declared dependencies

13 external dependencies (excludes base and recommended)

Installing crispRdesignR adds 47 packages (25 with compiled code, 46 MB of source tarballs). Heaviest: stringi 11 MB, bslib 5.6 MB, promises 3.1 MB. 7 more not on CRAN are not measured.

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.

How these are counted

Code & Tests

People & History

People (2)

Dylan Beeber

Author, Maintainer since 1.1.5 (2020)

Frederic Chain

Author

Releases (3)

Pick two releases to compare their code metrics.

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
unarchivedReturned to CRAN
2023-04-12
1.1.7Latest
record
2023-04-12 · current release · diff ↗
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
record
2021-01-11 · diff ↗
1.1.5
record
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

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("crispRdesignR")

Format

Beeber, D., & Chain, F. (2023). crispRdesignR: Guide Sequence Design for CRISPR/Cas9 (Version 1.1.7) [Computer software]. https://doi.org/10.32614/CRAN.package.crispRdesignR

This package has no citation file, so citation() returns this entry built from DESCRIPTION.

Cite the R Observatory

For a number measured here: a download total, a coverage figure, an archival date.

Format

APA

Balamuta, J. J. (2026). R Observatory: Metrics for crispRdesignR version 1.1.7 [Data set]. HJJB, LLC. Data release v2026-10-18. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-18, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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