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quantro

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

A test for when to use quantile normalization


Bioconductor version: Development (3.19)

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>

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

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

Details

biocViews Microarray, MultipleComparison, Normalization, Preprocessing, Sequencing, Software
Version 1.37.0
In Bioconductor since BioC 3.0 (R-3.1) (9.5 years)
License GPL-3
Depends R (>= 4.0)
Imports Biobase, minfi, doParallel, foreach, iterators, ggplot2, methods, RColorBrewer
System Requirements
URL
See More
Suggests rmarkdown, knitr, RUnit, BiocGenerics, BiocStyle
Linking To
Enhances
Depends On Me
Imports Me yarn
Suggests Me extraChIPs, qsmooth
Links To Me
Build Report Build Report

Package Archives

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

Source Package quantro_1.37.0.tar.gz
Windows Binary quantro_1.37.0.zip (64-bit only)
macOS Binary (x86_64) quantro_1.37.0.tgz
macOS Binary (arm64) quantro_1.37.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/quantro
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/quantro
Bioc Package Browser https://code.bioconductor.org/browse/quantro/
Package Short Url https://bioconductor.org/packages/quantro/
Package Downloads Report Download Stats