ENmix

This is the released version of ENmix; for the devel version, see ENmix.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2, 3.1

Quality control and analysis tools for Illumina DNA methylation BeadChip

Bioconductor version: Release (3.23)

Tools for quanlity control, analysis and visulization of Illumina DNA methylation array data.

Author: Zongli Xu [cre, aut], Liang Niu [aut], Jack Taylor [ctb]

Maintainer: Zongli Xu <xuz at niehs.nih.gov>

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

Zongli Xu, Liang Niu. ENmix: Quality control and analysis tools for Illumina DNA methylation BeadChip. doi:10.18129/B9.bioc.ENmix, R package version 1.48.4, https://bioconductor.org/packages/ENmix.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

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

BiocManager::install("ENmix")

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("ENmix")

ENmix User's Guide	HTML	R Script
Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	BatchEffect, DNAMethylation, DataImport, DifferentialMethylation, Epigenetics, ImmunoOncology, MethylationArray, Microarray, MultiChannel, Normalization, OneChannel, Preprocessing, PrincipalComponent, QualityControl, Regression, Software, TwoChannel
Version	1.48.4
In Bioconductor since	BioC 3.1 (R-3.2) (11.5 years)
License	Artistic-2.0
Depends	parallel, doParallel, foreach, SummarizedExperiment, stats, R (>= 3.5.0)
Imports	grDevices, graphics, matrixStats, methods, utils, irlba, geneplotter, impute, minfi, RPMM, illuminaio, dynamicTreeCut, IRanges, gtools, Biobase, ExperimentHub, AnnotationHub, genefilter, gplots, quadprog, S4Vectors
System Requirements
URL	https://github.com/Bioconductor/ENmix
Bug Reports	https://github.com/Bioconductor/ENmix/issues

Suggests	minfiData, RUnit, BiocGenerics, BiocStyle, knitr, rmarkdown
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report	Build Report, r-universe

Package Archives

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

Source Package	ENmix_1.48.4.tar.gz
Windows Binary (x86_64)	ENmix_1.48.4.zip (64-bit only)
macOS Binary (big-sur-x86_64)	ENmix_1.48.4.tgz
macOS Binary (sonoma-arm64)	ENmix_1.48.4.tgz
Source Repository	git clone https://git.bioconductor.org/packages/ENmix
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/ENmix
Package Short Url	https://bioconductor.org/packages/ENmix/
Package Downloads Report	Download Stats
Old Source Packages for BioC 3.23	Source Archive