epigenomix

DOI: 10.18129/B9.bioc.epigenomix  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see epigenomix.

Epigenetic and gene transcription data normalization and integration with mixture models

Bioconductor version: 3.17

A package for the integrative analysis of RNA-seq or microarray based gene transcription and histone modification data obtained by ChIP-seq. The package provides methods for data preprocessing and matching as well as methods for fitting bayesian mixture models in order to detect genes with differences in both data types.

Author: Hans-Ulrich Klein, Martin Schaefer

Maintainer: Hans-Ulrich Klein <h.klein at uni-muenster.de>

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

Installation

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

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

BiocManager::install("epigenomix")

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("epigenomix")

 

PDF R Script epigenomix package vignette
PDF   Reference Manual

Details

biocViews ChIPSeq, Classification, DifferentialExpression, GeneExpression, Software
Version 1.40.0
In Bioconductor since BioC 2.12 (R-3.0) (10.5 years)
License LGPL-3
Depends R (>= 3.5.0), methods, Biobase, S4Vectors, IRanges, GenomicRanges, SummarizedExperiment
Imports BiocGenerics, MCMCpack, Rsamtools, parallel, GenomeInfoDb, beadarray
LinkingTo
Suggests
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package epigenomix_1.40.0.tar.gz
Windows Binary epigenomix_1.40.0.zip
macOS Binary (x86_64) epigenomix_1.40.0.tgz
macOS Binary (arm64) epigenomix_1.40.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/epigenomix
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/epigenomix
Bioc Package Browser https://code.bioconductor.org/browse/epigenomix/
Package Short Url https://bioconductor.org/packages/epigenomix/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: