SplicingFactory

DOI: 10.18129/B9.bioc.SplicingFactory    

Splicing Diversity Analysis for Transcriptome Data

Bioconductor version: Release (3.13)

The SplicingFactory R package uses transcript-level expression values to analyze splicing diversity based on various statistical measures, like Shannon entropy or the Gini index. These measures can quantify transcript isoform diversity within samples or between conditions. Additionally, the package analyzes the isoform diversity data, looking for significant changes between conditions.

Author: Peter A. Szikora [aut], Tamas Por [aut], Endre Sebestyen [aut, cre]

Maintainer: Endre Sebestyen <sebestyen.endre at med.semmelweis-univ.hu>

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

Installation

To install this package, start R (version "4.1") and enter:

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

BiocManager::install("SplicingFactory")

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("SplicingFactory")

 

HTML R Script SplicingFactory
PDF   Reference Manual
Text   NEWS
Text   LICENSE

Details

biocViews AlternativeSplicing, DifferentialSplicing, RNASeq, Software, TranscriptomeVariant, Transcriptomics
Version 1.0.0
In Bioconductor since BioC 3.13 (R-4.1) (< 6 months)
License GPL-3 + file LICENSE
Depends R (>= 4.1)
Imports SummarizedExperiment, methods, stats
LinkingTo
Suggests testthat, knitr, rmarkdown, ggplot2, tidyr
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 SplicingFactory_1.0.0.tar.gz
Windows Binary SplicingFactory_1.0.0.zip
macOS 10.13 (High Sierra) SplicingFactory_1.0.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/SplicingFactory
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/SplicingFactory
Package Short Url https://bioconductor.org/packages/SplicingFactory/
Package Downloads Report Download Stats

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