crisprViz

DOI: 10.18129/B9.bioc.crisprViz    

This is the development version of crisprViz; for the stable release version, see crisprViz.

Visualization Functions for CRISPR gRNAs

Bioconductor version: Development (3.17)

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")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

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")

 

HTML R Script Introduction to crisprViz
PDF   Reference Manual
Text   NEWS
Text   LICENSE

Details

biocViews CRISPR, FunctionalGenomics, GeneTarget, Software
Version 1.1.0
In Bioconductor since BioC 3.16 (R-4.2) (< 6 months)
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
LinkingTo
Suggests AnnotationHub, BiocStyle, BSgenome.Hsapiens.UCSC.hg38, knitr, rmarkdown, rtracklayer, testthat, utils
SystemRequirements
Enhances
URL https://github.com/crisprVerse/crisprViz
BugReports https://github.com/crisprVerse/crisprViz/issues
Depends On Me
Imports Me crisprVerse
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package crisprViz_1.1.0.tar.gz
Windows Binary
macOS Binary (x86_64)
macOS Binary (arm64)
Source Repository git clone https://git.bioconductor.org/packages/crisprViz
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/crisprViz
Package Short Url https://bioconductor.org/packages/crisprViz/
Package Downloads Report Download Stats

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