SPLINTER

DOI: 10.18129/B9.bioc.SPLINTER    

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see SPLINTER.

Splice Interpreter Of Transcripts

Bioconductor version: 3.9

SPLINTER 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

Maintainer: Diana Low <dlow at imcb.a-star.edu.sg>

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

Installation

To install this package, start R (version "3.6") and enter:

if (!requireNamespace("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")

 

PDF R Script SPLINTER
PDF   Reference Manual
Text   NEWS

Details

biocViews AlternativeSplicing, GeneExpression, ImmunoOncology, RNASeq, Software, Visualization
Version 1.10.0
In Bioconductor since BioC 3.4 (R-3.3) (3 years)
License GPL-2
Depends R (>= 3.4.0), grDevices, stats
Imports graphics, ggplot2, seqLogo, Biostrings, biomaRt, GenomicAlignments, GenomicRanges, GenomicFeatures, Gviz, IRanges, S4Vectors, GenomeInfoDb, utils, plyr, stringr, methods, BSgenome.Mmusculus.UCSC.mm9, googleVis
LinkingTo
Suggests BiocStyle, 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 SPLINTER_1.10.0.tar.gz
Windows Binary SPLINTER_1.10.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) SPLINTER_1.10.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/SPLINTER
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/SPLINTER
Package Short Url https://bioconductor.org/packages/SPLINTER/
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