wateRmelon
Illumina DNA methylation array normalization and metrics
Bioconductor version: Release (3.20)
15 flavours of betas and three performance metrics, with methods for objects produced by methylumi and minfi packages.
Author: Leo C Schalkwyk [cre, aut], Tyler J Gorrie-Stone [aut], Ruth Pidsley [aut], Chloe CY Wong [aut], Nizar Touleimat [ctb], Matthieu Defrance [ctb], Andrew Teschendorff [ctb], Jovana Maksimovic [ctb], Louis Y El Khoury [ctb], Yucheng Wang [ctb], Alexandria Andrayas [ctb]
Maintainer: Leo C Schalkwyk <lschal at essex.ac.uk>
citation("wateRmelon")
):
Installation
To install this package, start R (version "4.4") 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")
wateRmelon User's Guide | HTML | R Script |
Reference Manual |
Details
biocViews | DNAMethylation, Microarray, Preprocessing, QualityControl, Software, TwoChannel |
Version | 2.12.0 |
In Bioconductor since | BioC 2.12 (R-3.0) (11.5 years) |
License | GPL-3 |
Depends | R (>= 3.5.0), Biobase, limma, methods, matrixStats, methylumi, lumi, ROC, IlluminaHumanMethylation450kanno.ilmn12.hg19, illuminaio |
Imports | Biobase |
System Requirements | |
URL |
See More
Suggests | RPMM, IlluminaHumanMethylationEPICanno.ilm10b2.hg19, BiocStyle, knitr, rmarkdown, IlluminaHumanMethylationEPICmanifest, irlba, FlowSorted.Blood.EPIC, FlowSorted.Blood.450k, preprocessCore |
Linking To | |
Enhances | minfi |
Depends On Me | bigmelon, skewr |
Imports Me | ChAMP, MEAT |
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_2.12.0.tar.gz |
Windows Binary (x86_64) | wateRmelon_2.12.0.zip |
macOS Binary (x86_64) | wateRmelon_2.12.0.tgz |
macOS Binary (arm64) | wateRmelon_2.12.0.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 |