quantro

This package is for version 3.19 of Bioconductor; for the stable, up-to-date release version, see quantro.

A test for when to use quantile normalization

Bioconductor version: 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")
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

Need some help? Ask on the Bioconductor Support site!

Details

biocViews Microarray, MultipleComparison, Normalization, Preprocessing, Sequencing, Software

Version 1.38.0

In Bioconductor since BioC 3.0 (R-3.1) (10 years)

License GPL-3

Depends R (>= 4.0)

Imports Biobase, minfi, doParallel, foreach, iterators, ggplot2, methods, RColorBrewer

System Requirements

URL

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_1.38.0.tar.gz

Windows Binary (x86_64) quantro_1.38.0.zip

macOS Binary (x86_64) quantro_1.38.0.tgz

macOS Binary (arm64) quantro_1.38.0.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/

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