RUVSeq
This is the development version of RUVSeq; for the stable release version, see RUVSeq.
Remove Unwanted Variation from RNA-Seq Data
Bioconductor version: Development (3.20)
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 "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
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 | HTML | R Script |
Reference Manual | ||
NEWS | Text |
Details
biocViews | DifferentialExpression, ImmunoOncology, Preprocessing, RNASeq, Software |
Version | 1.39.0 |
In Bioconductor since | BioC 3.0 (R-3.1) (10 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 | octad, rnaseqGene |
Imports Me | consensusDE, ribosomeProfilingQC, scone, standR |
Suggests Me | DEScan2, NanoTube |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | RUVSeq_1.39.0.tar.gz |
Windows Binary | RUVSeq_1.39.0.zip (64-bit only) |
macOS Binary (x86_64) | RUVSeq_1.39.0.tgz |
macOS Binary (arm64) | RUVSeq_1.39.0.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 |