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


Bioconductor version: Development (3.19)

ShinyÉPICo is a graphical pipeline to analyze Illumina DNA methylation arrays (450k or EPIC). It allows to calculate differentially methylated positions and differentially methylated regions in a user-friendly interface. Moreover, it includes several options to export the results and obtain files to perform downstream analysis.

Author: Octavio Morante-Palacios [cre, aut]

Maintainer: Octavio Morante-Palacios <octaviompa at gmail.com>

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


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

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

# The following initializes usage of Bioc devel


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:

shinyepico HTML R Script
Reference Manual PDF


biocViews DNAMethylation, DifferentialMethylation, Microarray, Preprocessing, QualityControl, Software
Version 1.11.0
In Bioconductor since BioC 3.13 (R-4.1) (3 years)
License AGPL-3 + file LICENSE
Depends R (>= 4.3.0)
Imports DT (>= 0.15.0), data.table (>= 1.13.0), doParallel (>= 1.0.0), dplyr (>= 1.0.9), foreach (>= 1.5.0), GenomicRanges(>= 1.38.0), ggplot2 (>= 3.3.0), gplots (>= 3.0.0), heatmaply (>= 1.1.0), limma(>= 3.42.0), minfi(>= 1.32.0), plotly (>= 4.9.2), reshape2 (>= 1.4.0), rlang (>= 1.0.2), rmarkdown (>= 2.3.0), rtracklayer(>= 1.46.0), shiny (>= 1.5.0), shinyWidgets (>= 0.5.0), shinycssloaders (>= 0.3.0), shinyjs (>= 1.1.0), shinythemes (>= 1.1.0), statmod (>= 1.4.0), tidyr (>= 1.2.0), zip (>= 2.1.0)
System Requirements
URL https://github.com/omorante/shiny_epico
Bug Reports https://github.com/omorante/shiny_epico/issues
See More
Suggests knitr (>= 1.30.0), mCSEA(>= 1.10.0), IlluminaHumanMethylation450kanno.ilmn12.hg19, IlluminaHumanMethylation450kmanifest, IlluminaHumanMethylationEPICanno.ilm10b4.hg19, IlluminaHumanMethylationEPICmanifest, testthat, minfiData, BiocStyle
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Package Archives

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

Source Package shinyepico_1.11.0.tar.gz
Windows Binary shinyepico_1.11.0.zip
macOS Binary (x86_64) shinyepico_1.11.0.tgz
macOS Binary (arm64) shinyepico_1.11.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/shinyepico
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/shinyepico
Bioc Package Browser https://code.bioconductor.org/browse/shinyepico/
Package Short Url https://bioconductor.org/packages/shinyepico/
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