quantro

This package is for version 3.7 of Bioconductor; for the stable, up-to-date release version, see quantro.

A test for when to use quantile normalization


Bioconductor version: 3.7

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 and Rafael Irizarry

Maintainer: Stephanie Hicks <shicks at jimmy.harvard.edu>

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

Installation

To install this package, start R (version "3.5") 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 PDF R Script
Reference Manual PDF
NEWS Text

Details

biocViews Microarray, MultipleComparison, Normalization, Preprocessing, Sequencing, Software
Version 1.14.0
In Bioconductor since BioC 3.0 (R-3.1) (9.5 years)
License GPL (>=3)
Depends R (>= 3.1.3)
Imports Biobase, minfi, doParallel, foreach, iterators, ggplot2, methods, RColorBrewer
System Requirements
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Suggests knitr, RUnit, BiocGenerics, BiocStyle
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Enhances
Depends On Me
Imports Me yarn
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Package Archives

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

Source Package quantro_1.14.0.tar.gz
Windows Binary quantro_1.14.0.zip
Mac OS X 10.11 (El Capitan) quantro_1.14.0.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 3.7 Source Archive