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>

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

Installation

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


if (!require("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")
The \Rpackage{wateRmelon} Package PDF R Script
Reference Manual PDF
NEWS Text

Details

biocViews DNAMethylation, Microarray, Preprocessing, QualityControl, Software, TwoChannel
Version 1.28.0
In Bioconductor since BioC 2.12 (R-3.0) (11 years)
License GPL-3
Depends R (>= 2.10), Biobase, limma, methods, matrixStats, methylumi, lumi, ROC, IlluminaHumanMethylation450kanno.ilmn12.hg19, illuminaio
Imports Biobase
System Requirements
URL
See More
Suggests RPMM, IlluminaHumanMethylationEPICanno.ilm10b2.hg19, IlluminaHumanMethylationEPICmanifest, irlba
Linking To
Enhances minfi
Depends On Me bigmelon, skewr
Imports Me ChAMP, ENmix
Suggests Me RnBeads
Links To Me
Build Report 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
Bioc Package Browser https://code.bioconductor.org/browse/wateRmelon/
Package Short Url https://bioconductor.org/packages/wateRmelon/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.9 Source Archive