wateRmelon

DOI: 10.18129/B9.bioc.wateRmelon    

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see wateRmelon.

Illumina 450 methylation array normalization and metrics

Bioconductor version: 3.9

15 flavours of betas and three performance metrics, with methods for objects produced by methylumi and minfi packages.

Author: Leonard C Schalkwyk, Ruth Pidsley, Chloe CY Wong, with functions contributed by Nizar Touleimat, Matthieu Defrance, Andrew Teschendorff, Jovana Maksimovic, Tyler Gorrie-Stone, Louis El Khoury

Maintainer: Leo <lschal at essex.ac.uk>

Installation

To install this package, start R (version "3.6") and enter:

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

BiocManager::install("wateRmelon")

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("wateRmelon")

 

PDF	R Script	The \Rpackage{wateRmelon} Package
PDF		Reference Manual
Text		NEWS

Details

biocViews	DNAMethylation, Microarray, Preprocessing, QualityControl, Software, TwoChannel
Version	1.28.0
In Bioconductor since	BioC 2.12 (R-3.0) (6.5 years)
License	GPL-3
Depends	R (>= 2.10), Biobase, limma, methods, matrixStats, methylumi, lumi, ROC, IlluminaHumanMethylation450kanno.ilmn12.hg19, illuminaio
Imports	Biobase
LinkingTo
Suggests	RPMM, IlluminaHumanMethylationEPICanno.ilm10b2.hg19, IlluminaHumanMethylationEPICmanifest, irlba
SystemRequirements
Enhances	minfi
URL
Depends On Me	bigmelon, skewr
Imports Me	ChAMP, ENmix
Suggests Me	RnBeads
Links To Me
Build Report

Package Archives

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

Source Package	wateRmelon_1.28.0.tar.gz
Windows Binary	wateRmelon_1.28.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan)	wateRmelon_1.28.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/wateRmelon
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/wateRmelon
Package Short Url	https://bioconductor.org/packages/wateRmelon/
Package Downloads Report	Download Stats