epigenomix

DOI: 10.18129/B9.bioc.epigenomix    

This package is for version 3.8 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: 3.8

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>

Installation

To install this package, start R (version "3.5") and enter:

if (!requireNamespace("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	1.22.0
In Bioconductor since	BioC 2.12 (R-3.0) (6 years)
License	LGPL-3
Depends	R (>= 3.2.0), methods, Biobase, S4Vectors, IRanges, GenomicRanges, SummarizedExperiment
Imports	BiocGenerics, MCMCpack, Rsamtools, parallel, GenomeInfoDb, beadarray
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Package Archives

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

Source Package	epigenomix_1.22.0.tar.gz
Windows Binary	epigenomix_1.22.0.zip
Mac OS X 10.11 (El Capitan)	epigenomix_1.22.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/epigenomix
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/epigenomix
Package Short Url	http://bioconductor.org/packages/epigenomix/
Package Downloads Report	Download Stats