regsplice

This package is for version 3.11 of Bioconductor; for the stable, up-to-date release version, see regsplice.

L1-regularization based methods for detection of differential splicing


Bioconductor version: 3.11

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 <lukas.weber.edu at gmail.com>

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

Installation

To install this package, start R (version "4.0") and enter:


if (!require("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")
regsplice workflow HTML R Script
Reference Manual PDF
NEWS Text
LICENSE Text

Details

biocViews AlternativeSplicing, DifferentialExpression, DifferentialSplicing, ExonArray, ExperimentalDesign, ImmunoOncology, Microarray, RNASeq, Sequencing, Software
Version 1.14.0
In Bioconductor since BioC 3.4 (R-3.3) (7.5 years)
License MIT + file LICENSE
Depends
Imports glmnet, SummarizedExperiment, S4Vectors, limma, edgeR, stats, pbapply, utils, methods
System Requirements
URL https://github.com/lmweber/regsplice
Bug Reports https://github.com/lmweber/regsplice/issues
See More
Suggests testthat, BiocStyle, knitr, rmarkdown
Linking To
Enhances
Depends On Me
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Links To Me
Build Report Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package regsplice_1.14.0.tar.gz
Windows Binary regsplice_1.14.0.zip
macOS 10.13 (High Sierra) regsplice_1.14.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/regsplice
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/regsplice
Bioc Package Browser https://code.bioconductor.org/browse/regsplice/
Package Short Url https://bioconductor.org/packages/regsplice/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.11 Source Archive