regsplice
This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see regsplice.
L1-regularization based methods for detection of differential splicing
Bioconductor version: 3.8
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("regsplice")):
Installation
To install this package, start R (version "3.5") 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")| Example workflow for regsplice package | R Script | |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | AlternativeSplicing, DifferentialExpression, DifferentialSplicing, ExonArray, ExperimentalDesign, ImmunoOncology, Microarray, RNASeq, Sequencing, Software |
| Version | 1.8.1 |
| 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 | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | regsplice_1.8.1.tar.gz |
| Windows Binary | regsplice_1.8.1.zip |
| Mac OS X 10.11 (El Capitan) | regsplice_1.8.1.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 3.8 | Source Archive |