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# 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 "epialleleR" in publications use:'
type: software
license: Artistic-2.0
title: 'epialleleR: Fast, Accurate, Epiallele-Aware Methylation Caller and Reporter'
version: 1.20.0
doi: 10.1093/gigascience/giad087
identifiers:
- type: doi
  value: 10.32614/CRAN.package.epialleleR
abstract: Epialleles are specific DNA methylation patterns that are mitotically and/or
  meiotically inherited. This package calls and reports cytosine methylation as well
  as frequencies of hypermethylated epialleles at the level of genomic regions or
  individual cytosines in next-generation sequencing data using binary alignment map
  (BAM) files as an input. Among other things, this package can also extract and visualise
  methylation patterns and assess allele specificity of methylation.
authors:
- family-names: Nikolaienko
  given-names: Oleksii
  email: oleksii.nikolaienko@gmail.com
  orcid: https://orcid.org/0000-0002-5910-4934
preferred-citation:
  type: article
  title: 'epialleleR: an R/Bioconductor package for sensitive allele-specific methylation
    analysis in NGS data'
  authors:
  - family-names: Nikolaienko
    given-names: Oleksii
    email: oleksii.nikolaienko@gmail.com
    orcid: https://orcid.org/0000-0002-5910-4934
  - family-names: Lønning
    given-names: Per Eystein
  - family-names: Knappskog
    given-names: Stian
  journal: GigaScience
  volume: '12'
  year: '2023'
  month: '10'
  url: https://doi.org/10.1093/gigascience/giad087
  start: giad087
  doi: 10.1093/gigascience/giad087
repository: https://bioc-release.r-universe.dev
repository-code: https://github.com/BBCG/epialleleR
commit: ad311c0e1dd399b02f365da484624173660afaa2
url: https://github.com/BBCG/epialleleR
date-released: '2026-04-28'
contact:
- family-names: Nikolaienko
  given-names: Oleksii
  email: oleksii.nikolaienko@gmail.com
  orcid: https://orcid.org/0000-0002-5910-4934