# --------------------------------------------
# CITATION file created with {cffr} R package
# See also: https://docs.ropensci.org/cffr/
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cff-version: 1.2.0
message: 'To cite package "vulcan" in publications use:'
type: software
license: LGPL-3.0-only
title: 'vulcan: VirtUaL ChIP-Seq data Analysis using Networks'
version: 1.27.0
identifiers:
- type: doi
  value: 10.32614/CRAN.package.vulcan
abstract: '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.'
authors:
- family-names: Giorgi
  given-names: Federico M.
  email: federico.giorgi@gmail.com
- family-names: Giorgi
  given-names: Federico M.
- family-names: Holding
  given-names: Andrew N.
- family-names: Markowetz
  given-names: Florian
preferred-citation:
  type: article
  title: VULCAN integrates ChIP-seq with patient-derived co-expression networks to
    identify GRHL2 as a key co-regulator of ERa at enhancers in breast cancer
  authors:
  - family-names: Holding
    given-names: Andrew N
  - family-names: Giorgi
    given-names: Federico M
  - family-names: Donnelly
    given-names: Amanda
  - family-names: Cullen
    given-names: Amy E
  - family-names: Nagarajan
    given-names: Sankari
  - family-names: Selth
    given-names: Luke A
  - family-names: Markowetz
    given-names: Florian
  journal: Genome Biology
  year: '2019'
  volume: '20'
  issue: '91'
  start: '838'
  end: '47'
repository: https://bioc.r-universe.dev
commit: cb667e031efdc15bbe837154302a7a16a8e550c1
contact:
- family-names: Giorgi
  given-names: Federico M.
  email: federico.giorgi@gmail.com