Ularcirc

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

Bioconductor version: 3.23 · Package version: 1.30.0

Other Bioconductor versions

devel is the development version; release is the current stable one.

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.

DOI: 10.18129/B9.bioc.Ularcirc

Installation

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

BiocManager::install("Ularcirc")

Details

Maintainer	David Humphreys <d.humphreys@victorchang.edu.au>
Author	David Humphreys [aut, cre]
License	file LICENSE
Source branch	RELEASE_3_23
Build report	Bioconductor build system, r-universe
biocViews	AlternativeSplicing, Annotation, Coverage, DataRepresentation, DifferentialSplicing, Genetics, Sequencing, Software, Visualization
Package Short Url	https://bioconductor.org/packages/Ularcirc/

Citation

From within R, enter citation("Ularcirc"):

David Humphreys. Ularcirc: Shiny app for canonical and back splicing analysis (i.e. circular and mRNA analysis). doi:10.18129/B9.bioc.Ularcirc, R package version 1.30.0, https://bioconductor.org/packages/Ularcirc.

Generated from the package metadata; it may differ from the package's own citation.

Documentation

Ularcirc: A shiny application for canonical and back splicing analysis

Dependencies

Depends: R (>= 3.4.0)

Imports: AnnotationHub, AnnotationDbi, BiocGenerics, Biostrings, BSgenome, data.table (>= 1.9.4), DT, GenomicFeatures, GenomeInfoDb, GenomeInfoDbData, GenomicAlignments, GenomicRanges, ggplot2, ggrepel, gsubfn, moments, Organism.dplyr, plotgardener, R.utils, S4Vectors, shiny, shinydashboard, shinyFiles, shinyjs, yaml

Suggests: BSgenome.Hsapiens.UCSC.hg38, BiocStyle, httpuv, knitr, org.Hs.eg.db, rmarkdown, TxDb.Hsapiens.UCSC.hg38.knownGene