Bioconductor – wateRmelon

DOI: 10.18129/B9.bioc.wateRmelon  

 

This package is for version 3.11 of Bioconductor;
for the stable, up-to-date release version, see
wateRmelon.

Illumina 450 methylation array normalization and metrics

Bioconductor version: 3.11

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
“4.0”) 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")

 

Details

biocViews DNAMethylation, Microarray, Preprocessing, QualityControl, Software, TwoChannel
Version 1.32.0
In Bioconductor since BioC 2.12 (R-3.0) (7.5 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, MEAT
Suggests Me RnBeads
Links To Me
Build Report  

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package in your R session.


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