quantro

DOI: 10.18129/B9.bioc.quantro    

A test for when to use quantile normalization

Bioconductor version: Release (3.11)

A data-driven test for the assumptions of quantile normalization using raw data such as objects that inherit eSets (e.g. ExpressionSet, MethylSet). Group level information about each sample (such as Tumor / Normal status) must also be provided because the test assesses if there are global differences in the distributions between the user-defined groups.

Author: Stephanie Hicks [aut, cre] , Rafael Irizarry [aut]

Maintainer: Stephanie Hicks <shicks19 at jhu.edu>

Installation

To install this package, start R (version "4.0") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("quantro")

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("quantro")

 

HTML	R Script	The quantro user's guide
PDF		Reference Manual
Text		NEWS

Details

biocViews	Microarray, MultipleComparison, Normalization, Preprocessing, Sequencing, Software
Version	1.22.0
In Bioconductor since	BioC 3.0 (R-3.1) (6 years)
License	GPL (>=3)
Depends	R (>= 4.0)
Imports	Biobase, minfi, doParallel, foreach, iterators, ggplot2, methods, RColorBrewer
LinkingTo
Suggests	knitr, RUnit, BiocGenerics, BiocStyle
SystemRequirements
Enhances
URL
Depends On Me
Imports Me	yarn
Suggests Me	qsmooth
Links To Me
Build Report

Package Archives

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

Source Package	quantro_1.22.0.tar.gz
Windows Binary	quantro_1.22.0.zip
macOS 10.13 (High Sierra)	quantro_1.22.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/quantro
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/quantro
Package Short Url	https://bioconductor.org/packages/quantro/
Package Downloads Report	Download Stats
Old Source Packages for BioC 3.11	Source Archive