regsplice

This is the released version of regsplice; for the devel version, see regsplice.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4

L1-regularization based methods for detection of differential splicing

Bioconductor version: Release (3.23)

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 <weberlm3 at gmail.com>

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

Lukas M. Weber. regsplice: L1-regularization based methods for detection of differential splicing. doi:10.18129/B9.bioc.regsplice, R package version 1.38.1, https://bioconductor.org/packages/regsplice.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") 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	1.38.1
In Bioconductor since	BioC 3.4 (R-3.3) (10 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
Imports Me
Suggests Me
Links To Me
Build Report	Build Report, r-universe

Package Archives

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

Source Package	regsplice_1.38.1.tar.gz
Windows Binary (x86_64)	regsplice_1.38.1.zip
macOS Binary (big-sur-x86_64)	regsplice_1.38.1.tgz
macOS Binary (sonoma-arm64)	regsplice_1.38.1.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 3.23	Source Archive