SPLINTER

This is the released version of SPLINTER; for the devel version, see SPLINTER.

Splice Interpreter of Transcripts

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DOI: 10.18129/B9.bioc.SPLINTER

Bioconductor version: Release (3.22)

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 "4.5") and enter:


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

Need some help? Ask on the Bioconductor Support site!

Details

biocViews AlternativeSplicing, GeneExpression, ImmunoOncology, RNASeq, Software, Visualization

Version 1.36.0

In Bioconductor since BioC 3.4 (R-3.3) (9 years)

License GPL-2

Depends R (>= 3.6.0), grDevices, stats

Imports graphics, ggplot2, seqLogo, Biostrings, pwalign, biomaRt, GenomicAlignments, GenomicRanges, GenomicFeatures, Gviz, IRanges, S4Vectors, Seqinfo, utils, plyr, stringr, methods, BSgenome.Mmusculus.UCSC.mm9, googleVis

System Requirements

URL https://github.com/dianalow/SPLINTER/

Bug Reports https://github.com/dianalow/SPLINTER/issues

Suggests txdbmaker, BiocStyle, knitr, rmarkdown

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Package Archives

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

Source Package SPLINTER_1.36.0.tar.gz

Windows Binary (x86_64) SPLINTER_1.36.0.zip

macOS Binary (x86_64) SPLINTER_1.36.0.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/

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