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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 "ADAPT" in publications use:'
type: software
license: MIT
title: 'ADAPT: Analysis of Microbiome Differential Abundance by Pooling Tobit Models'
version: 1.6.0
doi: 10.1101/2024.05.14.594186
identifiers:
- type: doi
  value: 10.32614/CRAN.package.ADAPT
abstract: ADAPT carries out differential abundance analysis for microbiome metagenomics
  data in phyloseq format. It has two innovations. One is to treat zero counts as
  left censored and use Tobit models for log count ratios. The other is an innovative
  way to find non-differentially abundant taxa as reference, then use the reference
  taxa to find the differentially abundant ones.
authors:
- family-names: Wang
  given-names: Mukai
  email: wangmk@umich.edu
  orcid: https://orcid.org/0000-0002-1413-1904
- family-names: Li
  given-names: Gen
  email: ligen@umich.edu
preferred-citation:
  type: article
  title: 'ADAPT: Analysis of Microbiome Differential Abundance by Pooling Tobit Models'
  authors:
  - family-names: Wang
    given-names: Mukai
    email: wangmk@umich.edu
    orcid: https://orcid.org/0000-0002-1413-1904
  - family-names: Fontaine
    given-names: Simon
  - family-names: Jiang
    given-names: Hui
  - family-names: Li
    given-names: Gen
    email: ligen@umich.edu
  journal: bioRxiv
  year: '2024'
  doi: 10.1101/2024.05.14.594186
repository: https://bioc-release.r-universe.dev
commit: 6e0cbf87732a87d24e7f9e33a74f52b07570b315
date-released: '2026-04-28'
contact:
- family-names: Wang
  given-names: Mukai
  email: wangmk@umich.edu
  orcid: https://orcid.org/0000-0002-1413-1904