This is the development version of vulcan; for the stable release version, see vulcan.
VirtUaL ChIP-Seq data Analysis using NetworksBioconductor version: Development (3.22)
Vulcan (VirtUaL ChIP-Seq Analysis through Networks) is a package that interrogates gene regulatory networks to infer cofactors significantly enriched in a differential binding signature coming from ChIP-Seq data. In order to do so, our package combines strategies from different BioConductor packages: DESeq for data normalization, ChIPpeakAnno and DiffBind for annotation and definition of ChIP-Seq genomic peaks, csaw to define optimal peak width and viper for applying a regulatory network over a differential binding signature.
Author: Federico M. Giorgi, Andrew N. Holding, Florian Markowetz
Maintainer: Federico M. Giorgi <federico.giorgi at gmail.com>
Citation (from within R, entercitation("vulcan")): Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("vulcan")
For older versions of R, please refer to the appropriate Bioconductor release.
DocumentationTo view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("vulcan")Follow Installation instructions to use this package in your R session.
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