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# CITATION.cff 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 "AMRvalid" in publications use:'
type: software
license: MIT
title: 'AMRvalid: Population-Aware Evaluation of Antimicrobial Resistance Predictions'
version: 1.0.0
doi: 10.5281/zenodo.24151080
identifiers:
- type: doi
  value: 10.32614/CRAN.package.AMRvalid
abstract: Evaluates antimicrobial resistance phenotype predictions made by external
  models and rule-based tools against phenotypic reference results, accounting for
  the population structure of bacterial isolates. Provides a documented data contract
  and input validation; classification and probability metrics and antimicrobial susceptibility
  testing agreement metrics (categorical agreement, very major, major and minor errors,
  essential agreement) per species and antimicrobial; checks for overlap between training
  and test isolates; performance by genomic distance to the training data; cluster
  bootstrap intervals and paired model comparisons; calibration; prevalence-adjusted
  predictive values; and reports aligned with the TRIPOD+AI checklist (Collins et
  al. (2024) <https://doi.org/10.1136/bmj-2023-078378>). Organism and antimicrobial
  identifiers use the classes of the 'AMR' package. Models are not trained inside
  the package.
authors:
- family-names: Faruqe
  given-names: Md Omar
  email: faruqe@ru.ac.bd
  orcid: https://orcid.org/0000-0002-1226-7226
preferred-citation:
  type: manual
  title: 'AMRvalid: Population-Aware Evaluation of Antimicrobial Resistance Predictions'
  authors:
  - family-names: Faruqe
    given-names: Md Omar
    email: faruqe@ru.ac.bd
    orcid: https://orcid.org/0000-0002-1226-7226
  year: '2026'
  notes: R package version 1.0.0
  doi: 10.5281/zenodo.24151080
  url: https://github.com/omarfaruqe/AMRvalid
repository: https://omarfaruqe.r-universe.dev
repository-code: https://github.com/omarfaruqe/AMRvalid
commit: a39901ba953d62eb8b67dcffc541173e21eb0a11
url: https://github.com/omarfaruqe/AMRvalid
date-released: '2026-11-12'
contact:
- family-names: Faruqe
  given-names: Md Omar
  email: faruqe@ru.ac.bd
  orcid: https://orcid.org/0000-0002-1226-7226