EpiDISH
This is the released version of EpiDISH; for the devel version, see EpiDISH.
Epigenetic Dissection of Intra-Sample-Heterogeneity
Bioconductor version: Release (3.23)
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 blood-tissue of any age, from birth to old-age, 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("EpiDISH")):Andrew E. Teschendorff, Shijie C. Zheng. EpiDISH: Epigenetic Dissection of Intra-Sample-Heterogeneity. doi:10.18129/B9.bioc.EpiDISH, R package version 2.28.0, https://bioconductor.org/packages/EpiDISH.
Generated from the package metadata; it may differ from the package's own citation.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("EpiDISH")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("EpiDISH")| Epigenetic Dissection of Intra-Sample-Heterogeneity | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DNAMethylation, DifferentialMethylation, Epigenetics, ImmunoOncology, MethylationArray, Software |
| Version | 2.28.0 |
| In Bioconductor since | BioC 3.6 (R-3.4) (9 years) |
| License | GPL-2 |
| Depends | R (>= 4.1) |
| Imports | MASS, e1071, quadprog, parallel, stats, matrixStats, stringr, locfdr, Matrix, genefilter |
| System Requirements | |
| URL | https://github.com/sjczheng/EpiDISH |
| Bug Reports | https://github.com/sjczheng/EpiDISH/issues |
See More
| Suggests | roxygen2, GEOquery, BiocStyle, knitr, rmarkdown, Biobase, testthat |
| Linking To | |
| Enhances | |
| Depends On Me | TOAST |
| Imports Me | |
| Suggests Me | CimpleG, FlowSorted.Blood.EPIC, planet |
| Links To Me | |
| Build Report | Build Report, r-universe |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | EpiDISH_2.28.0.tar.gz |
| Windows Binary (x86_64) | EpiDISH_2.28.0.zip |
| macOS Binary (big-sur-x86_64) | EpiDISH_2.28.0.tgz |
| macOS Binary (sonoma-arm64) | EpiDISH_2.28.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/EpiDISH |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/EpiDISH |
| Package Short Url | https://bioconductor.org/packages/EpiDISH/ |
| Package Downloads Report | Download Stats |