# --------------------------------------------
# CITATION file created with {cffr} R package
# See also: https://docs.ropensci.org/cffr/
# --------------------------------------------
 
cff-version: 1.2.0
message: 'To cite package "DMRcate" in publications use:'
type: software
title: 'DMRcate: Methylation array and sequencing spatial analysis methods'
version: 3.1.10
identifiers:
- type: doi
  value: 10.32614/CRAN.package.DMRcate
abstract: De novo identification and extraction of differentially methylated regions
  (DMRs) from the human genome using Whole Genome Bisulfite Sequencing (WGBS) and
  Illumina Infinium Array (450K and EPIC) data. Provides functionality for filtering
  probes possibly confounded by SNPs and cross-hybridisation. Includes GRanges generation
  and plotting functions.
authors:
- family-names: Peters
  given-names: Tim
  email: t.peters@garvan.org.au
- family-names: Buckley
  given-names: Mike
preferred-citation:
  type: article
  title: De novo identification of differentially methylated regions in the human
    genome
  authors:
  - family-names: Peters
    given-names: Timothy J
  - family-names: Buckley
    given-names: Michael J
  - family-names: Statham
    given-names: Aaron L
  - family-names: Pidsley
    given-names: Ruth
  - family-names: Samaras
    given-names: Katherine
  - family-names: Lord
    given-names: Reginald V
  - family-names: Clark
    given-names: Susan J
  - family-names: Molloy
    given-names: Peter L
  journal: Epigenetics & Chromatin
  year: '2015'
  volume: '8'
  url: http://www.epigeneticsandchromatin.com/content/8/1/6
  start: '6'
repository: https://bioc.r-universe.dev
commit: 66618451e243df44f8bb5d5553251592d21cb918
contact:
- family-names: Peters
  given-names: Tim
  email: t.peters@garvan.org.au
references:
- type: article
  title: Calling differentially methylated regions from whole genome bisulphite sequencing
    with DMRcate
  authors:
  - family-names: Peters
    given-names: Timothy J
  - family-names: Buckley
    given-names: Michael J
  - name: Yunshun Chen
  - family-names: Smyth
    given-names: Gordon K
  - family-names: Goodnow
    given-names: Christopher C
  - family-names: Clark
    given-names: Susan J
  journal: Nucleic Acids Research
  year: '2021'
  volume: '49'
  issue: '19'
  url: https://academic.oup.com/nar/article/49/19/e109/6329576
- type: article
  title: Characterisation and reproducibility of the HumanMethylationEPIC v2.0 BeadChip
    for DNA methylation profiling
  authors:
  - family-names: Peters
    given-names: Timothy J
  - family-names: Meyer
    given-names: Braydon
  - family-names: Ryan
    given-names: Lauren
  - family-names: Achinger-Kawecka
    given-names: Joanna
  - family-names: Song
    given-names: Jenny
  - family-names: Campbell
    given-names: Elyssa M
  - family-names: Qu
    given-names: Wenjia
  - family-names: Nair
    given-names: Shalima
  - family-names: Loi-Luu
    given-names: Phuc
  - family-names: Stricker
    given-names: Phillip
  - family-names: Lim
    given-names: Elgene
  - family-names: Stirzaker
    given-names: Clare
  - family-names: Clark
    given-names: Susan J
  - family-names: Pidsley
    given-names: Ruth
  journal: BMC Genomics
  year: '2024'
  volume: '25'
  issue: '251'
  url: https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-024-10027-5