Ularcirc
Shiny app for canonical and back splicing analysis (i.e. circular and mRNA analysis)
Bioconductor version: Release (3.19)
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 "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("Ularcirc")
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")
Ularcirc | HTML | R Script |
Reference Manual | ||
NEWS | Text | |
LICENSE | Text |
Details
biocViews | AlternativeSplicing, Annotation, Coverage, DataRepresentation, DifferentialSplicing, Genetics, Sequencing, Software, Visualization |
Version | 1.22.0 |
In Bioconductor since | BioC 3.8 (R-3.5) (6 years) |
License | file LICENSE |
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, mirbase.db, moments, Organism.dplyr, plotgardener, R.utils, S4Vectors, shiny, shinydashboard, shinyFiles, shinyjs, yaml |
System Requirements | |
URL |
See More
Suggests | BSgenome.Hsapiens.UCSC.hg38, BiocStyle, httpuv, knitr, org.Hs.eg.db, rmarkdown, TxDb.Hsapiens.UCSC.hg38.knownGene |
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 | Ularcirc_1.22.0.tar.gz |
Windows Binary | Ularcirc_1.22.0.zip |
macOS Binary (x86_64) | Ularcirc_1.22.0.tgz |
macOS Binary (arm64) | Ularcirc_1.22.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/Ularcirc |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/Ularcirc |
Bioc Package Browser | https://code.bioconductor.org/browse/Ularcirc/ |
Package Short Url | https://bioconductor.org/packages/Ularcirc/ |
Package Downloads Report | Download Stats |