Package: crisprScore
Version: 1.14.0
Date: 2025-06-20
Title: On-Target and Off-Target Scoring Algorithms for CRISPR gRNAs
Authors@R: c(
    person("Jean-Philippe", "Fortin", email = "fortin946@gmail.com", role = c("aut", "cre", "cph")),
    person("Aaron", "Lun", email = "infinite.monkeys.with.keyboards@gmail.com", role = c("aut")),
    person("Luke", "Hoberecht", email = "lukehob3@gmail.com", role = c("ctb")),
    person("Pirunthan", "Perampalam", email = "pirunthan@gmail.com", role = c("ctb")))
Depends: R (>= 4.1), crisprScoreData (>= 1.1.3)
Imports: basilisk (>= 1.9.2), 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
git_url: https://git.bioconductor.org/packages/crisprScore
git_branch: RELEASE_3_22
git_last_commit: 86c5f68
git_last_commit_date: 2025-10-29
Repository: Bioconductor 3.22
Date/Publication: 2025-10-29
NeedsCompilation: no
Packaged: 2025-10-30 03:16:51 UTC; biocbuild
Author: Jean-Philippe Fortin [aut, cre, cph],
  Aaron Lun [aut],
  Luke Hoberecht [ctb],
  Pirunthan Perampalam [ctb]
Maintainer: Jean-Philippe Fortin <fortin946@gmail.com>
Built: R 4.5.1; ; 2025-10-30 12:11:13 UTC; unix
