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# CITATION.cff file created with {cffr} R package
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cff-version: 1.2.0
message: 'To cite package "consensusRegions" in publications use:'
type: software
license: GPL-3.0-only
title: 'consensusRegions: Consensus Regions from Replicated ChIP-seq and ATAC-seq
  Experiments'
version: 0.99.2
doi: 10.32614/CRAN.package.consensusRegions
abstract: 'Merges the evidence carried by replicated ChIP-seq, ATAC-seq or CUT&RUN
  experiments into a single set of consensus regions. When several replicates agree
  on a position their p-values are combined, so that a peak too weak to survive on
  its own can still be retained. Fisher, Stouffer, Lancaster and rank-product combinations
  are available; the weighted ones accept per-replicate weights taken from FRiP scores,
  library sizes, or the peak sets themselves when no alignment file is at hand. Input
  can be anything from a full narrowPeak to a bare BED3: scores are rank-transformed
  when p-values are missing, and a weighted k-of-n presence rule takes over when even
  the score is absent. The threshold on the combined significance can be calibrated
  against a permutation null rather than fixed a priori. Quality control plots and
  export to SummarizedExperiment are included.'
authors:
- family-names: Gregoricchio
  given-names: Sebastian
  email: s.gregoricchio@nki.nl
  orcid: https://orcid.org/0000-0001-9209-5403
repository: https://biocstaging.r-universe.dev
repository-code: https://github.com/sebastian-gregoricchio/consensusRegions
commit: 381aadb6a7429acdf28263a50ffe59ccffcd856e
url: https://github.com/sebastian-gregoricchio/consensusRegions
date-released: '2026-10-08'
contact:
- family-names: Gregoricchio
  given-names: Sebastian
  email: s.gregoricchio@nki.nl
  orcid: https://orcid.org/0000-0001-9209-5403