regsplice

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see regsplice.

L1-regularization based methods for detection of differential splicing

Bioconductor version: 3.17

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 "4.3") 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

Need some help? Ask on the Bioconductor Support site!

Details

biocViews AlternativeSplicing, DifferentialExpression, DifferentialSplicing, ExonArray, ExperimentalDesign, ImmunoOncology, Microarray, RNASeq, Sequencing, Software

Version 1.26.0

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

Suggests testthat, BiocStyle, knitr, rmarkdown

Linking To

Enhances

Depends On Me

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Build Report Build Report

Package Archives

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

Source Package regsplice_1.26.0.tar.gz

Windows Binary regsplice_1.26.0.zip

macOS Binary (x86_64) regsplice_1.26.0.tgz

macOS Binary (arm64) regsplice_1.26.0.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 3.17 Source Archive