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SPLINTER

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

Splice Interpreter of Transcripts

Bioconductor version: Development (3.18)

Provides tools to analyze alternative splicing sites, interpret outcomes based on sequence information, select and design primers for site validiation and give visual representation of the event to guide downstream experiments.

Author: Diana Low [aut, cre]

Maintainer: Diana Low <lowdiana at gmail.com>

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

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("SPLINTER")

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("SPLINTER")
SPLINTER PDF R Script
Reference Manual PDF
NEWS Text

Details

biocViews AlternativeSplicing, GeneExpression, ImmunoOncology, RNASeq, Software, Visualization
Version 1.27.0
In Bioconductor since BioC 3.4 (R-3.3) (7 years)
License GPL-2
Depends R (>= 3.6.0), grDevices, stats
Imports graphics, ggplot2, seqLogo, Biostrings, biomaRt, GenomicAlignments, GenomicRanges, GenomicFeatures, Gviz, IRanges, S4Vectors, GenomeInfoDb, utils, plyr, stringr, methods, BSgenome.Mmusculus.UCSC.mm9, googleVis
Linking To
Suggests BiocStyle, knitr, rmarkdown
System Requirements
Enhances
URL https://github.com/dianalow/SPLINTER/
Bug Reports https://github.com/dianalow/SPLINTER/issues
See More
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 SPLINTER_1.27.0.tar.gz
Windows Binary
macOS Binary (x86_64) SPLINTER_1.27.0.tgz
macOS Binary (arm64)
Source Repository git clone https://git.bioconductor.org/packages/SPLINTER
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/SPLINTER
Bioc Package Browser https://code.bioconductor.org/browse/SPLINTER/
Package Short Url https://bioconductor.org/packages/SPLINTER/
Package Downloads Report Download Stats