crisprShiny

This package is for version 3.21 of Bioconductor; for the stable, up-to-date release version, see crisprShiny.

Exploring curated CRISPR gRNAs via Shiny

Bioconductor version: 3.21

Provides means to interactively visualize guide RNAs (gRNAs) in GuideSet objects via Shiny application. This GUI can be self-contained or as a module within a larger Shiny app. The content of the app reflects the annotations present in the passed GuideSet object, and includes intuitive tools to examine, filter, and export gRNAs, thereby making gRNA design more user-friendly.

Author: Jean-Philippe Fortin [aut, cre], Luke Hoberecht [aut]

Maintainer: Jean-Philippe Fortin <fortin946 at gmail.com>

Citation (from within R, enter citation("crisprShiny")):

Installation

To install this package, start R (version "4.5") and enter:


if (!require("BiocManager", quietly = TRUE))
 install.packages("BiocManager")
BiocManager::install("crisprShiny")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("crisprShiny")

Introduction to crisprShiny HTML R Script

Reference Manual PDF

NEWS Text

LICENSE Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews CRISPR, FunctionalGenomics, GUI, GeneTarget, Software

Version 1.4.0

In Bioconductor since BioC 3.19 (R-4.4) (1.5 years)

License MIT + file LICENSE

Depends R (>= 4.4.0), shiny

Imports BiocGenerics, Biostrings, BSgenome, crisprBase, crisprDesign, crisprScore, crisprViz, DT, GenomeInfoDb, htmlwidgets, methods, pwalign, S4Vectors, shinyBS, shinyjs, utils, waiter

System Requirements

URL https://github.com/crisprVerse/crisprShiny

Bug Reports https://github.com/crisprVerse/crisprShiny/issues

Suggests BiocStyle, knitr, rmarkdown, shinyFeedback, testthat (>= 3.0.0), BSgenome.Hsapiens.UCSC.hg38

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Package Archives

Follow Installation instructions to use this package in your R session.

Source Package crisprShiny_1.4.0.tar.gz

Windows Binary (x86_64) crisprShiny_1.4.0.zip

macOS Binary (x86_64) crisprShiny_1.4.0.tgz

macOS Binary (arm64) crisprShiny_1.4.0.tgz

Source Repository git clone https://git.bioconductor.org/packages/crisprShiny

Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/crisprShiny

Bioc Package Browser https://code.bioconductor.org/browse/crisprShiny/

Package Short Url https://bioconductor.org/packages/crisprShiny/

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