regsplice

DOI: 10.18129/B9.bioc.regsplice    

L1-regularization based methods for detection of differential splicing

Bioconductor version: Release (3.10)

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>

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

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")

 

HTML R Script regsplice workflow
PDF   Reference Manual
Text   NEWS
Text   LICENSE

Details

biocViews AlternativeSplicing, DifferentialExpression, DifferentialSplicing, ExonArray, ExperimentalDesign, ImmunoOncology, Microarray, RNASeq, Sequencing, Software
Version 1.12.5
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_1.12.5.tar.gz
Windows Binary regsplice_1.12.5.zip
Mac OS X 10.11 (El Capitan) regsplice_1.12.5.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
Old Source Packages for BioC 3.10 Source Archive

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