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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 "animalcules" in publications use:'
type: software
license: Artistic-2.0
title: 'animalcules: Interactive microbiome analysis toolkit'
version: 1.28.0
doi: 10.1186/s40168-021-01013-0
identifiers:
- type: doi
  value: 10.32614/CRAN.package.animalcules
abstract: animalcules is an R package for utilizing up-to-date data analytics, visualization
  methods, and machine learning models to provide users an easy-to-use interactive
  microbiome analysis framework. It can be used as a standalone software package or
  users can explore their data with the accompanying interactive R Shiny application.
  Traditional microbiome analysis such as alpha/beta diversity and differential abundance
  analysis are enhanced, while new methods like biomarker identification are introduced
  by animalcules. Powerful interactive and dynamic figures generated by animalcules
  enable users to understand their data better and discover new insights.
authors:
- family-names: Johnson
  given-names: W. Evan
  email: wej@bu.edu
  orcid: https://orcid.org/0000-0002-6247-6595
- family-names: Zhao
  given-names: Yue
  email: yuezh@bu.edu
  orcid: https://orcid.org/0000-0001-5257-5103
- family-names: Federico
  given-names: Anthony
  email: anfed@bu.edu
  orcid: https://orcid.org/0000-0002-9200-1689
preferred-citation:
  type: article
  title: 'animalcules: interactive microbiome analytics and visualization in R'
  authors:
  - family-names: Zhao
    given-names: Yue
    email: yuezh@bu.edu
    orcid: https://orcid.org/0000-0001-5257-5103
  - family-names: Federico
    given-names: Anthony
    email: anfed@bu.edu
    orcid: https://orcid.org/0000-0002-9200-1689
  - family-names: Faits
    given-names: Tyler
  - family-names: Manimaran
    given-names: Solaiappan
  - family-names: Segrè
    given-names: Daniel
  - family-names: Monti
    given-names: Stefano
  - family-names: Johnson
    given-names: W. Evan
    email: wej@bu.edu
    orcid: https://orcid.org/0000-0002-6247-6595
  year: '2021'
  journal: Microbiome
  doi: 10.1186/s40168-021-01013-0
  volume: '9'
  issue: '1'
  start: '76'
repository: https://bioc-release.r-universe.dev
repository-code: https://github.com/wejlab/animalcules
commit: eb03d7e2c8f1dec3d06f9ad55a34862974cc8b6a
url: https://github.com/wejlab/animalcules
date-released: '2026-04-28'
contact:
- family-names: Johnson
  given-names: W. Evan
  email: wej@bu.edu
  orcid: https://orcid.org/0000-0002-6247-6595