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ENmix

This is the development version of ENmix; for the stable release version, see ENmix.

Quality control and analysis tools for Illumina DNA methylation BeadChip


Bioconductor version: Development (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 niehs.nih.gov>

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

Installation

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


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

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

Details

biocViews BatchEffect, DNAMethylation, DataImport, DifferentialMethylation, Epigenetics, ImmunoOncology, MethylationArray, Microarray, MultiChannel, Normalization, OneChannel, Preprocessing, PrincipalComponent, QualityControl, Regression, Software, TwoChannel
Version 1.39.2
In Bioconductor since BioC 3.1 (R-3.2) (9 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
See More
Suggests minfiData, RUnit, BiocGenerics, BiocStyle, knitr, rmarkdown
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package ENmix_1.39.2.tar.gz
Windows Binary ENmix_1.39.2.zip
macOS Binary (x86_64) ENmix_1.39.2.tgz
macOS Binary (arm64) ENmix_1.39.2.tgz
Source Repository git clone https://git.bioconductor.org/packages/ENmix
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/ENmix
Bioc Package Browser https://code.bioconductor.org/browse/ENmix/
Package Short Url https://bioconductor.org/packages/ENmix/
Package Downloads Report Download Stats