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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 "aroma.cn" in publications use:'
type: software
license: LGPL-2.0-or-later
title: 'aroma.cn: Copy-Number Analysis of Large Microarray Data Sets'
version: 1.7.1
doi: 10.1093/bioinformatics/btr329
identifiers:
- type: doi
  value: 10.32614/CRAN.package.aroma.cn
abstract: Methods for analyzing DNA copy-number data. Specifically, this package implements
  the multi-source copy-number normalization (MSCN) method for normalizing copy-number
  data obtained on various platforms and technologies. It also implements the TumorBoost
  method for normalizing paired tumor-normal SNP data.
authors:
- family-names: Bengtsson
  given-names: Henrik
  email: henrikb@braju.com
- family-names: Neuvial
  given-names: Pierre
preferred-citation:
  type: article
  title: Parent-specific copy number in paired tumor-normal studies using circular
    binary segmentation
  authors:
  - family-names: Olshen
    given-names: Adam B.
  - family-names: Bengtsson
    given-names: Henrik
    email: henrikb@braju.com
  - family-names: Neuvial
    given-names: Pierre
  - family-names: Spellman
    given-names: Paul
  - family-names: Olshen
    given-names: Richard A.
  - family-names: Seshan
    given-names: Venkatraman E.
  journal: Bioinformatics
  year: '2011'
  volume: '27'
  issue: '15'
  doi: 10.1093/bioinformatics/btr329
  url: https://doi.org/10.1093/bioinformatics/btr329
repository: https://henrikbengtsson.r-universe.dev
repository-code: https://github.com/HenrikBengtsson/aroma.cn
commit: df71918f6fd2ee9e6aeb0523352e998931da1d28
url: https://www.aroma-project.org/
contact:
- family-names: Bengtsson
  given-names: Henrik
  email: henrikb@braju.com
references:
- type: article
  title: 'TumorBoost: Normalization of allele-specific tumor copy numbers from a single
    pair of tumor-normal genotyping microarrays'
  authors:
  - family-names: Bengtsson
    given-names: H.
  - family-names: Neuvial
    given-names: Pierre
  - family-names: Speed
    given-names: Terence P
  journal: BMC Bioinformatics
  year: '2010'
  month: '5'
  volume: '11'
  issue: '245'
  doi: 10.1186/1471-2105-11-245
  url: https://doi.org/10.1186/1471-2105-11-245
- type: article
  title: A single-sample method for normalizing and combining full-resolutioncopy
    numbers from multiple platforms, labs and analysis methods
  authors:
  - family-names: Bengtsson
    given-names: Henrik
  - family-names: Ray
    given-names: Amrita
  - family-names: Spellman
    given-names: Paul
  - family-names: Speed
    given-names: Terence P
  journal: Bioinformatics
  year: '2009'
  volume: '25'
  issue: '7'
  doi: 10.1093/bioinformatics/btp074
  url: https://academic.oup.com/bioinformatics/article/25/7/861/210486
- type: report
  title: 'aroma.affymetrix: A generic framework in R for analyzing small to very large
    Affymetrix data sets in bounded memory'
  authors:
  - family-names: Bengtsson
    given-names: H.
  - family-names: Simpson
    given-names: K.
  - family-names: Bullard
    given-names: J.
  - family-names: Hansen
    given-names: K.
  institution:
    name: Department of Statistics, University of California, Berkeley
  year: '2008'
  month: '2'
  issue: '745'
- type: article
  title: Estimation and assessment of raw copy numbers at the single locus level
  authors:
  - family-names: Bengtsson
    given-names: Henrik
  - family-names: Irizarry
    given-names: R.
  - family-names: Carvalho
    given-names: B.
  - family-names: Speed
    given-names: T.P.
  journal: Bioinformatics
  year: '2008'
  volume: '24'
  issue: '6'
  url: https://academic.oup.com/bioinformatics/article/24/6/759/193223