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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 "postexportKinetics" in publications use:'
type: software
license: MIT
title: 'postexportKinetics: Kinetic Model Comparison for Post-Export RNA Conversion'
version: 0.99.0
abstract: Compartment-resolved four-state kinetic modelling of nuclear and cytoplasmic,
  unprocessed and processed RNA. Implements a constrained nested-model comparison
  between a null model without a post-export conversion rate and a full model with
  a non-negative post-export conversion rate, using trapezoidal interval balances,
  propagated and regularised measurement covariance, whitened non-negative least squares
  and a replicate-level generative bootstrap with an add-one p-value. Also provides
  simulation with the manuscript simulator and assay-noise models, diagnostic comparison
  of sampling designs with the manuscript benchmark, multiple-testing adjustment,
  exploratory candidate ranking, tidy result tables and plots. The post-export conversion
  rate is a phenomenological parameter and does not identify a specific molecular
  mechanism.
authors:
- family-names: Faretra
  given-names: Luca
- family-names: Napolitano
  given-names: Francesco
- family-names: Pancione
  given-names: Massimo
- family-names: Cerulo
  given-names: Luigi
  email: lcerulo@unisannio.it
preferred-citation:
  type: manual
  title: 'postexportKinetics: Kinetic Model Comparison for Post-Export RNA Conversion'
  authors:
  - family-names: Faretra
    given-names: Luca
  - family-names: Napolitano
    given-names: Francesco
  - family-names: Pancione
    given-names: Massimo
  - family-names: Cerulo
    given-names: Luigi
    email: lcerulo@unisannio.it
  year: '2026'
  notes: R package version 0.99.0
  url: https://github.com/bioinformatics-sannio/postexportKinetics
repository: https://biocstaging.r-universe.dev
repository-code: https://github.com/bioinformatics-sannio/postexportKinetics
commit: d099ac79d1bacc8edd24a5d9aa4f3ffaea67ee0f
url: https://github.com/bioinformatics-sannio/postexportKinetics
date-released: '2026-09-26'
contact:
- family-names: Cerulo
  given-names: Luigi
  email: lcerulo@unisannio.it
references:
- type: unpublished
  title: Kinetic model comparison identifies RNA trajectories consistent with post-export
    processing
  authors:
  - family-names: Faretra
    given-names: Luca
  - family-names: Napolitano
    given-names: Francesco
  - family-names: Pancione
    given-names: Massimo
  - family-names: Cerulo
    given-names: Luigi
  year: '2026'
  notes: Revised manuscript submitted to Bioinformatics (BIOINF-2026-0699)
- type: generic
  title: 'Post-export RNA kinetics: reproducibility code for compartment-resolved
    kinetic inference'
  authors:
  - family-names: Faretra
    given-names: Luca
  - family-names: Napolitano
    given-names: Francesco
  - family-names: Pancione
    given-names: Massimo
  - family-names: Cerulo
    given-names: Luigi
  year: '2026'
  notes: Frozen manuscript implementation, tag manuscript-revision-v1.0; this DOI
    is not a DOI of postexportKinetics
  publisher:
    name: Zenodo
  doi: 10.5281/zenodo.22944109
  url: https://doi.org/10.5281/zenodo.22944109