spliceSites

DOI: 10.18129/B9.bioc.spliceSites    

This package is for version 3.9 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see spliceSites.

A bioconductor package for exploration of alignment gap positions from RNA-seq data

Bioconductor version: 3.9

Performs splice centered analysis on RNA-seq data.

Author: Wolfgang Kaisers

Maintainer: Wolfgang Kaisers <kaisers at med.uni-duesseldorf.de>

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

Installation

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

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

BiocManager::install("spliceSites")

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("spliceSites")

 

PDF R Script spliceSites
PDF   Reference Manual
Text   NEWS

Details

biocViews DifferentialExpression, GeneExpression, Proteomics, RNAseq, Software
Version 1.31.0
In Bioconductor since BioC 2.13 (R-3.0) (6 years)
License GPL-2
Depends methods, rbamtools (>= 2.14.3), refGenome (>= 1.6.0), Biobase, Biostrings(>= 2.28.0)
Imports BiocGenerics, doBy, seqLogo, IRanges
LinkingTo
Suggests
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 spliceSites_1.31.0.tar.gz
Windows Binary spliceSites_1.31.0.zip
Mac OS X 10.11 (El Capitan) spliceSites_1.31.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/spliceSites
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/spliceSites
Package Short Url https://bioconductor.org/packages/spliceSites/
Package Downloads Report Download Stats

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