# --------------------------------------------
# CITATION file created with {cffr} R package
# See also: https://docs.ropensci.org/cffr/
# --------------------------------------------
 
cff-version: 1.2.0
message: 'To cite package "dnaEPICO" in publications use:'
type: software
license: AGPL-3.0-only
title: 'dnaEPICO: dnaEPICO: Analysis Pipeline for Illumina DNA Methylation Array Data'
version: 0.99.22
doi: 10.3390/epigenomes9040039
identifiers:
- type: doi
  value: 10.32614/CRAN.package.dnaEPICO
abstract: A modular and reproducible workflow for preprocessing and analysing Illumina
  DNA methylation array data from the EPICv2, EPIC, and 450K platforms. The package
  integrates quality control, probe filtering, cell-type deconvolution, phenotype
  preparation, generalised linear models, linear mixed-effects models, and automated
  report generation. It builds on established Bioconductor infrastructure and wraps
  commonly used tools including 'minfi', 'ENmix', and 'wateRmelon', with support for
  both local execution and high-performance computing workflows.
authors:
- family-names: Ruiz
  given-names: Paul
  email: ruizpint@qut.edu.au
  orcid: https://orcid.org/0009-0007-6714-3566
- family-names: Mehta
  given-names: Divya
  orcid: https://orcid.org/0000-0001-7971-7255
preferred-citation:
  type: article
  title: 'dnaEPICO: Analysis Pipeline for Illumina DNA Methylation Array Data'
  authors:
  - family-names: Ruiz
    given-names: Paul
    email: ruizpint@qut.edu.au
    orcid: https://orcid.org/0009-0007-6714-3566
  - family-names: Mehta
    given-names: Divya
    orcid: https://orcid.org/0000-0001-7971-7255
  doi: 10.3390/epigenomes9040039
  journal: Epigenomes
  year: '2025'
  url: https://bioconductor.org/packages/dnaEPICO
repository: https://bioc.r-universe.dev
repository-code: https://github.com/paulYRP/dnaEPICO
commit: 65bbf248d4e52d70151d3e6f04b0c3d91f512de4
url: https://github.com/paulYRP/dnaEPICO
date-released: '2026-01-18'
contact:
- family-names: Ruiz
  given-names: Paul
  email: ruizpint@qut.edu.au
  orcid: https://orcid.org/0009-0007-6714-3566