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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 "ProteinBatcher" in publications use:'
type: software
license: MIT
title: 'ProteinBatcher: An end-to-end proteomics workflow with condition-aware imputation,
  flexible statistical modelling and interactive visualization'
version: 0.99.7
doi: 10.32614/CRAN.package.ProteinBatcher
abstract: ProteinBatcher provides utilities to read, validate, and harmonize quantitative
  proteomics result tables generated by DIA-NN from data-independent acquisition mass
  spectrometry experiments. The package enables batch processing of multiple DIA-NN
  output files, consistent handling of protein identifiers and associated metadata,
  and transformation of tabular data into analysis-ready formats. It facilitates downstream
  differential abundance analysis using linear modeling frameworks based on limma,
  with explicit support for multivariable experimental designs including batch effects
  and other confounding covariates, as well as correlation-aware designs via duplicateCorrelation.
authors:
- family-names: Moruno-Cuenca
  given-names: Aitor
  email: morunoaitor@gmail.com
  orcid: https://orcid.org/0009-0009-8133-2552
repository: https://bioc.r-universe.dev
repository-code: https://github.com/DataScienceRD-Almirall/ProteinBatcher
commit: 1c6df35e6b9a0f0f333f23521ff00b7bd5ff508f
url: https://github.com/DataScienceRD-Almirall/ProteinBatcher
date-released: '2026-08-21'
contact:
- family-names: Moruno-Cuenca
  given-names: Aitor
  email: morunoaitor@gmail.com
  orcid: https://orcid.org/0009-0009-8133-2552