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Quality control and analysis tools for Illumina DNA methylation BeadChip

Bioconductor version: Release (3.19)

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>

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


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

ENmix User's Guide HTML R Script
Reference Manual PDF


biocViews BatchEffect, DNAMethylation, DataImport, DifferentialMethylation, Epigenetics, ImmunoOncology, MethylationArray, Microarray, MultiChannel, Normalization, OneChannel, Preprocessing, PrincipalComponent, QualityControl, Regression, Software, TwoChannel
Version 1.40.2
In Bioconductor since BioC 3.1 (R-3.2) (9.5 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
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Suggests minfiData, RUnit, BiocGenerics, BiocStyle, knitr, rmarkdown
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Package Archives

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

Source Package ENmix_1.40.2.tar.gz
Windows Binary (64-bit only)
macOS Binary (x86_64) ENmix_1.40.2.tgz
macOS Binary (arm64) ENmix_1.40.2.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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Old Source Packages for BioC 3.19 Source Archive