regsplice

DOI: 10.18129/B9.bioc.regsplice    

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

L1-regularization based methods for detection of differential splicing

Bioconductor version: 3.9

Statistical methods for detection of differential splicing (differential exon usage) in RNA-seq and exon microarray data, using L1-regularization (lasso) to improve power.

Author: Lukas M. Weber [aut, cre]

Maintainer: Lukas M. Weber <lukmweber at gmail.com>

Installation

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

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

BiocManager::install("regsplice")

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("regsplice")

 

PDF	R Script	Example workflow for regsplice package
PDF		Reference Manual
Text		NEWS
Text		LICENSE

Details

biocViews	AlternativeSplicing, DifferentialExpression, DifferentialSplicing, ExonArray, ExperimentalDesign, ImmunoOncology, Microarray, RNASeq, Sequencing, Software
Version	1.10.0
In Bioconductor since	BioC 3.4 (R-3.3) (3 years)
License	MIT + file LICENSE
Depends
Imports	glmnet, SummarizedExperiment, S4Vectors, limma, edgeR, stats, pbapply, utils, methods
LinkingTo
Suggests	testthat, BiocStyle, knitr, rmarkdown
SystemRequirements
Enhances
URL	https://github.com/lmweber/regsplice
BugReports	https://github.com/lmweber/regsplice/issues
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	regsplice_1.10.0.tar.gz
Windows Binary	regsplice_1.10.0.zip
Mac OS X 10.11 (El Capitan)	regsplice_1.10.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/regsplice
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/regsplice
Package Short Url	https://bioconductor.org/packages/regsplice/
Package Downloads Report	Download Stats