recipe bioconductor-shinyepico







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.

package bioconductor-shinyepico

(downloads) docker_bioconductor-shinyepico



depends bioconductor-genomicranges:


depends bioconductor-limma:


depends bioconductor-minfi:


depends bioconductor-rtracklayer:


depends r-base:


depends r-data.table:


depends r-doparallel:


depends r-dplyr:


depends r-dt:


depends r-foreach:


depends r-ggplot2:


depends r-gplots:


depends r-heatmaply:


depends r-plotly:


depends r-reshape2:


depends r-rlang:


depends r-rmarkdown:


depends r-shiny:


depends r-shinycssloaders:


depends r-shinyjs:


depends r-shinythemes:


depends r-shinywidgets:


depends r-statmod:


depends r-tidyr:


depends r-zip:




You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).

While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.

Given that you already have a conda environment in which you want to have this package, install with:

   mamba install bioconductor-shinyepico

and update with::

   mamba update bioconductor-shinyepico

To create a new environment, run:

mamba create --name myenvname bioconductor-shinyepico

with myenvname being a reasonable name for the environment (see e.g. the mamba docs for details and further options).

Alternatively, use the docker container:

   docker pull<tag>

(see `bioconductor-shinyepico/tags`_ for valid values for ``<tag>``)

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