RUVSeq
This package is for version 3.13 of Bioconductor; for the stable, up-to-date release version, see RUVSeq.
Remove Unwanted Variation from RNA-Seq Data
Bioconductor version: 3.13
This package implements the remove unwanted variation (RUV) methods of Risso et al. (2014) for the normalization of RNA-Seq read counts between samples.
Author: Davide Risso [aut, cre, cph], Sandrine Dudoit [aut], Lorena Pantano [ctb], Kamil Slowikowski [ctb]
Maintainer: Davide Risso <risso.davide at gmail.com>
citation("RUVSeq")
):
Installation
To install this package, start R (version "4.1") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("RUVSeq")
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("RUVSeq")
RUVSeq: Remove Unwanted Variation from RNA-Seq Data | R Script | |
Reference Manual | ||
NEWS | Text |
Details
biocViews | DifferentialExpression, ImmunoOncology, Preprocessing, RNASeq, Software |
Version | 1.26.0 |
In Bioconductor since | BioC 3.0 (R-3.1) (9.5 years) |
License | Artistic-2.0 |
Depends | Biobase, EDASeq(>= 1.99.1), edgeR |
Imports | methods, MASS |
System Requirements | |
URL | https://github.com/drisso/RUVSeq |
Bug Reports | https://github.com/drisso/RUVSeq/issues |
See More
Suggests | BiocStyle, knitr, RColorBrewer, zebrafishRNASeq, DESeq2 |
Linking To | |
Enhances | |
Depends On Me | rnaseqGene |
Imports Me | consensusDE, ribosomeProfilingQC, scone |
Suggests Me | DEScan2 |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | RUVSeq_1.26.0.tar.gz |
Windows Binary | RUVSeq_1.26.0.zip (32- & 64-bit) |
macOS 10.13 (High Sierra) | RUVSeq_1.26.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/RUVSeq |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/RUVSeq |
Bioc Package Browser | https://code.bioconductor.org/browse/RUVSeq/ |
Package Short Url | https://bioconductor.org/packages/RUVSeq/ |
Package Downloads Report | Download Stats |
Old Source Packages for BioC 3.13 | Source Archive |