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igvShiny

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

igvShiny: a wrapper of Integrative Genomics Viewer (IGV - an interactive tool for visualization and exploration integrated genomic data)


Bioconductor version: Development (3.20)

This package is a wrapper of Integrative Genomics Viewer (IGV). It comprises an htmlwidget version of IGV. It can be used as a module in Shiny apps.

Author: Paul Shannon [aut], Arkadiusz Gladki [aut, cre] , Karolina Scigocka [aut]

Maintainer: Arkadiusz Gladki <gladki.arkadiusz at gmail.com>

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

Installation

To install this package, start R (version "4.4") and enter:


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

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

BiocManager::install("igvShiny")

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("igvShiny")
igvShiny Overview HTML R Script
Reference Manual PDF
NEWS Text
LICENSE Text

Details

biocViews Coverage, Sequencing, ShinyApps, Software
Version 1.1.0
In Bioconductor since BioC 3.19 (R-4.4) (< 6 months)
License MIT + file LICENSE
Depends R (>= 3.5.0), GenomicRanges, methods, shiny
Imports BiocGenerics, checkmate, futile.logger, GenomeInfoDbData, htmlwidgets, httr, jsonlite, randomcoloR, RCurl, utils
System Requirements
URL https://github.com/gladkia/igvShiny https://gladkia.github.io/igvShiny/
Bug Reports https://github.com/gladkia/igvShiny/issues
See More
Suggests BiocStyle, GenomicAlignments, knitr, Rsamtools, rtracklayer, RUnit, shinytest2, VariantAnnotation
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package igvShiny_1.1.0.tar.gz
Windows Binary
macOS Binary (x86_64) igvShiny_1.1.0.tgz
macOS Binary (arm64) igvShiny_1.1.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/igvShiny
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/igvShiny
Bioc Package Browser https://code.bioconductor.org/browse/igvShiny/
Package Short Url https://bioconductor.org/packages/igvShiny/
Package Downloads Report Download Stats