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qsmooth

This is the development version of qsmooth; for the stable release version, see qsmooth.

Smooth quantile normalization


Bioconductor version: Development (3.19)

Smooth quantile normalization is a generalization of quantile normalization, which is average of the two types of assumptions about the data generation process: quantile normalization and quantile normalization between groups.

Author: Stephanie C. Hicks [aut, cre] , Kwame Okrah [aut], Koen Van den Berge [ctb], Hector Corrada Bravo [aut] , Rafael Irizarry [aut]

Maintainer: Stephanie C. Hicks <shicks19 at jhu.edu>

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

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("qsmooth")

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("qsmooth")
The qsmooth user's guide HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews BatchEffect, Microarray, MultipleComparison, Normalization, Preprocessing, RNASeq, Sequencing, Software
Version 1.19.0
In Bioconductor since BioC 3.9 (R-3.6) (5 years)
License GPL-3
Depends R (>= 4.0)
Imports SummarizedExperiment, utils, sva, stats, methods, graphics, Hmisc
System Requirements
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Suggests bodymapRat, quantro, knitr, rmarkdown, BiocStyle, testthat
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Package Archives

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

Source Package qsmooth_1.19.0.tar.gz
Windows Binary qsmooth_1.19.0.zip
macOS Binary (x86_64) qsmooth_1.19.0.tgz
macOS Binary (arm64)
Source Repository git clone https://git.bioconductor.org/packages/qsmooth
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/qsmooth
Bioc Package Browser https://code.bioconductor.org/browse/qsmooth/
Package Short Url https://bioconductor.org/packages/qsmooth/
Package Downloads Report Download Stats