federicogiorgi/vulcan: VirtUaL ChIP-Seq data Analysis using Networks

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.

Getting started

Package details

AuthorFederico M. Giorgi, Andrew N. Holding, Florian Markowetz
Bioconductor views ChIPSeq GeneExpression NetworkEnrichment SystemsBiology
MaintainerFederico M. Giorgi <federico.giorgi@gmail.com>
Package repositoryView on GitHub
Installation Install the latest version of this package by entering the following in R:
federicogiorgi/vulcan documentation built on May 27, 2019, 7:25 a.m.