crisprViz

This package is for version 3.18 of Bioconductor; for the stable, up-to-date release version, see crisprViz.

Visualization Functions for CRISPR gRNAs

Bioconductor version: 3.18

Provides functionalities to visualize and contextualize CRISPR guide RNAs (gRNAs) on genomic tracks across nucleases and applications. Works in conjunction with the crisprBase and crisprDesign Bioconductor packages. Plots are produced using the Gviz framework.

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

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

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

Installation

To install this package, start R (version "4.3") and enter:


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

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("crisprViz")

Introduction to crisprViz HTML R Script

Reference Manual PDF

NEWS Text

LICENSE Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews CRISPR, FunctionalGenomics, GeneTarget, Software

Version 1.4.0

In Bioconductor since BioC 3.16 (R-4.2) (1.5 years)

License MIT + file LICENSE

Depends R (>= 4.2.0), crisprBase(>= 0.99.15), crisprDesign(>= 0.99.77)

Imports BiocGenerics, Biostrings, BSgenome, GenomeInfoDb, GenomicFeatures, GenomicRanges, grDevices, Gviz, IRanges, methods, S4Vectors

System Requirements

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

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

Suggests AnnotationHub, BiocStyle, BSgenome.Hsapiens.UCSC.hg38, knitr, rmarkdown, rtracklayer, testthat, utils

Linking To

Enhances

Depends On Me

Imports Me crisprVerse

Suggests Me

Links To Me

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Package Archives

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

Source Package crisprViz_1.4.0.tar.gz

Windows Binary crisprViz_1.4.0.zip

macOS Binary (x86_64) crisprViz_1.4.0.tgz

macOS Binary (arm64) crisprViz_1.4.0.tgz

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

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

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

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

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