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Epigenetic Dissection of Intra-Sample-Heterogeneity

Bioconductor version: Release (3.18)

EpiDISH is a R package to infer the proportions of a priori known cell-types present in a sample representing a mixture of such cell-types. Right now, the package can be used on DNAm data of whole blood, generic epithelial tissue and breast tissue. Besides, the package provides a function that allows the identification of differentially methylated cell-types and their directionality of change in Epigenome-Wide Association Studies.

Author: Andrew E. Teschendorff [aut], Shijie C. Zheng [aut, cre]

Maintainer: Shijie C. Zheng <shijieczheng at gmail.com>

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


To install this package, start R (version "4.3") 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:

Epigenetic Dissection of Intra-Sample-Heterogeneity HTML R Script
Reference Manual PDF


biocViews DNAMethylation, DifferentialMethylation, Epigenetics, ImmunoOncology, MethylationArray, Software
Version 2.18.0
In Bioconductor since BioC 3.6 (R-3.4) (6.5 years)
License GPL-2
Depends R (>= 4.1)
Imports MASS, e1071, quadprog, parallel, stats, matrixStats, stringr, locfdr, Matrix
System Requirements
URL https://github.com/sjczheng/EpiDISH
Bug Reports https://github.com/sjczheng/EpiDISH/issues
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Suggests roxygen2, GEOquery, BiocStyle, knitr, rmarkdown, Biobase, testthat
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Depends On Me TOAST
Imports Me
Suggests Me FlowSorted.Blood.EPIC, planet
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Package Archives

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

Source Package EpiDISH_2.18.0.tar.gz
Windows Binary EpiDISH_2.18.0.zip
macOS Binary (x86_64) EpiDISH_2.18.0.tgz
macOS Binary (arm64) EpiDISH_2.18.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/EpiDISH
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/EpiDISH
Bioc Package Browser https://code.bioconductor.org/browse/EpiDISH/
Package Short Url https://bioconductor.org/packages/EpiDISH/
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