Package: crisprScore

Version: 1.9.3

Date: 2024-10-03

Title: On-Target and Off-Target Scoring Algorithms for CRISPR gRNAs

Authors@R: c(

person("Jean-Philippe", "Fortin", email = "[email protected]", role = c("aut", "cre", "cph")),

person("Aaron", "Lun", email = "[email protected]", role = c("aut")),

person("Luke", "Hoberecht", email = "[email protected]", role = c("ctb")),

person("Pirunthan", "Perampalam", email = "[email protected]", role = c("ctb")))

Depends:

R (>= 4.1),

crisprScoreData (>= 1.1.3)

Imports:

basilisk (>= 1.9.2),

basilisk.utils (>= 1.9.1),

BiocGenerics,

Biostrings,

IRanges,

methods,

randomForest,

reticulate,

stringr,

utils,

XVector

Suggests:

BiocStyle,

knitr,

rmarkdown,

testthat

biocViews:

CRISPR,

FunctionalGenomics,

FunctionalPrediction

Description:

Provides R wrappers of several on-target and off-target scoring methods for CRISPR guide RNAs (gRNAs).

The following nucleases are supported: SpCas9, AsCas12a, enAsCas12a, and RfxCas13d (CasRx).

The available on-target cutting efficiency scoring methods are RuleSet1, Azimuth, DeepHF, DeepCpf1,

enPAM+GB, and CRISPRscan. Both the CFD and MIT scoring methods are available for off-target

specificity prediction. The package also provides a Lindel-derived score to predict the probability

of a gRNA to produce indels inducing a frameshift for the Cas9 nuclease.

Note that DeepHF, DeepCpf1 and enPAM+GB are not available on Windows machines.

License: MIT + file LICENSE

Encoding: UTF-8

RoxygenNote: 7.3.2

VignetteBuilder: knitr

StagedInstall: no

BugReports: https://github.com/crisprVerse/crisprScore

URL: https://github.com/crisprVerse/crisprScore/issues

LazyData: true