Ularcirc

DOI: 10.18129/B9.bioc.Ularcirc    

Shiny app for canonical and back splicing analysis (i.e. circular and mRNA analysis)

Bioconductor version: Release (3.8)

Ularcirc reads in STAR aligned splice junction files and provides visualisation and analysis tools for splicing analysis. Users can assess backsplice junctions and forward canonical junctions.

Author: David Humphreys [aut, cre]

Maintainer: David Humphreys <d.humphreys at victorchang.edu.au>

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

Installation

To install this package, start R (version "3.5") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("Ularcirc", version = "3.8")

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("Ularcirc")

 

HTML R Script Ularcirc.html
PDF   Reference Manual
Text   NEWS
Text   LICENSE

Details

biocViews AlternativeSplicing, Annotation, Coverage, DataRepresentation, DifferentialSplicing, Genetics, Sequencing, Software, Visualization
Version 1.0.0
License file LICENSE
Depends R (>= 3.5.0)
Imports data.table (>= 1.9.4), shiny, shinyFiles, gsubfn, Biostrings, GenomicFeatures, GenomeInfoDb, GenomeInfoDbData, Sushi, moments, DT, yaml, AnnotationHub, BSgenome, httpuv, mirbase.db
LinkingTo
Suggests knitr, rmarkdown
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package Ularcirc_1.0.0.tar.gz
Windows Binary Ularcirc_1.0.0.zip
Mac OS X 10.11 (El Capitan) Ularcirc_1.0.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/Ularcirc
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/Ularcirc
Package Short Url http://bioconductor.org/packages/Ularcirc/
Package Downloads Report Download Stats

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