CITATION.cff

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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 "daedalus" in publications use:'
type: software
license: MIT
title: 'daedalus: Model Health, Social, and Economic Costs of a Pandemic'
version: 0.2.0
abstract: Model the health, education, and economic costs of directly transmitted
  respiratory virus pandemics, under different scenarios of prior vaccine investment
  and reactive interventions, using the 'DAEDALUS' integrated health-economics model
  adapted from Haw et al. (2022) <doi.org/10.1038/s43588-022-00233-0>.
authors:
- family-names: Gupte
  given-names: Pratik
  email: p.gupte24@imperial.ac.uk
  orcid: https://orcid.org/0000-0001-5294-7819
- family-names: Doohan
  given-names: Patrick
  orcid: https://orcid.org/0000-0001-8076-1106
- family-names: Johnson
  given-names: Robert
  orcid: https://orcid.org/0000-0002-7365-0042
- family-names: FitzJohn
  given-names: Rich
  orcid: https://orcid.org/0000-0001-8888-3837
- family-names: Russell
  given-names: Emma
- family-names: Mears
  given-names: David
- family-names: Hauck
  given-names: Katharina
  orcid: https://orcid.org/0000-0003-3138-4169
repository-code: https://github.com/jameel-institute/daedalus
url: https://jameel-institute.github.io/daedalus/
contact:
- family-names: Gupte
  given-names: Pratik
  email: p.gupte24@imperial.ac.uk
  orcid: https://orcid.org/0000-0001-5294-7819
keywords:
- decision-support
- epidemiological-models
- health-economics
- pandemic-preparedness
- public-health
- r-package
- rcpp
- sdg-3
references:
- type: software
  title: 'R: A Language and Environment for Statistical Computing'
  notes: Depends
  url: https://www.R-project.org/
  authors:
  - name: R Core Team
  institution:
    name: R Foundation for Statistical Computing
    address: Vienna, Austria
  year: '2025'
  version: '>= 2.10'
- type: software
  title: checkmate
  abstract: 'checkmate: Fast and Versatile Argument Checks'
  notes: Imports
  url: https://mllg.github.io/checkmate/
  repository: https://CRAN.R-project.org/package=checkmate
  authors:
  - family-names: Lang
    given-names: Michel
    email: michellang@gmail.com
    orcid: https://orcid.org/0000-0001-9754-0393
  year: '2025'
  doi: 10.32614/CRAN.package.checkmate
- type: software
  title: cli
  abstract: 'cli: Helpers for Developing Command Line Interfaces'
  notes: Imports
  url: https://cli.r-lib.org
  repository: https://CRAN.R-project.org/package=cli
  authors:
  - family-names: Csárdi
    given-names: Gábor
    email: csardi.gabor@gmail.com
  year: '2025'
  doi: 10.32614/CRAN.package.cli
- type: software
  title: data.table
  abstract: 'data.table: Extension of `data.frame`'
  notes: Imports
  url: https://r-datatable.com
  repository: https://CRAN.R-project.org/package=data.table
  authors:
  - family-names: Barrett
    given-names: Tyson
    email: t.barrett88@gmail.com
    orcid: https://orcid.org/0000-0002-2137-1391
  - family-names: Dowle
    given-names: Matt
    email: mattjdowle@gmail.com
  - family-names: Srinivasan
    given-names: Arun
    email: asrini@pm.me
  - family-names: Gorecki
    given-names: Jan
  - family-names: Chirico
    given-names: Michael
    orcid: https://orcid.org/0000-0003-0787-087X
  - family-names: Hocking
    given-names: Toby
    orcid: https://orcid.org/0000-0002-3146-0865
  - family-names: Schwendinger
    given-names: Benjamin
    orcid: https://orcid.org/0000-0003-3315-8114
  year: '2025'
  doi: 10.32614/CRAN.package.data.table
- type: software
  title: deSolve
  abstract: 'deSolve: Solvers for Initial Value Problems of Differential Equations
    (''ODE'', ''DAE'', ''DDE'')'
  notes: Imports
  url: http://desolve.r-forge.r-project.org/
  repository: https://CRAN.R-project.org/package=deSolve
  authors:
  - family-names: Soetaert
    given-names: Karline
    email: karline.soetaert@nioz.nl
    orcid: https://orcid.org/0000-0003-4603-7100
  - family-names: Petzoldt
    given-names: Thomas
    email: thomas.petzoldt@tu-dresden.de
    orcid: https://orcid.org/0000-0002-4951-6468
  - family-names: Setzer
    given-names: R. Woodrow
    email: setzer.woodrow@epa.gov
    orcid: https://orcid.org/0000-0002-6709-9186
  year: '2025'
  doi: 10.32614/CRAN.package.deSolve
- type: software
  title: Rcpp
  abstract: 'Rcpp: Seamless R and C++ Integration'
  notes: Imports
  url: https://www.rcpp.org
  repository: https://CRAN.R-project.org/package=Rcpp
  authors:
  - family-names: Eddelbuettel
    given-names: Dirk
    email: edd@debian.org
    orcid: https://orcid.org/0000-0001-6419-907X
  - family-names: Francois
    given-names: Romain
    orcid: https://orcid.org/0000-0002-2444-4226
  - family-names: Allaire
    given-names: JJ
    orcid: https://orcid.org/0000-0003-0174-9868
  - family-names: Ushey
    given-names: Kevin
    orcid: https://orcid.org/0000-0003-2880-7407
  - family-names: Kou
    given-names: Qiang
    orcid: https://orcid.org/0000-0001-6786-5453
  - family-names: Russell
    given-names: Nathan
  - family-names: Ucar
    given-names: Iñaki
    orcid: https://orcid.org/0000-0001-6403-5550
  - family-names: Bates
    given-names: Doug
    orcid: https://orcid.org/0000-0001-8316-9503
  - family-names: Chambers
    given-names: John
  year: '2025'
  doi: 10.32614/CRAN.package.Rcpp
- type: software
  title: RcppEigen
  abstract: 'RcppEigen: ''Rcpp'' Integration for the ''Eigen'' Templated Linear Algebra
    Library'
  notes: Imports
  url: https://dirk.eddelbuettel.com/code/rcpp.eigen.html
  repository: https://CRAN.R-project.org/package=RcppEigen
  authors:
  - family-names: Bates
    given-names: Doug
    orcid: https://orcid.org/0000-0001-8316-9503
  - family-names: Eddelbuettel
    given-names: Dirk
    email: edd@debian.org
    orcid: https://orcid.org/0000-0001-6419-907X
  - family-names: Francois
    given-names: Romain
    orcid: https://orcid.org/0000-0002-2444-4226
  - family-names: Qiu
    given-names: Yixuan
    orcid: https://orcid.org/0000-0003-0109-6692
  year: '2025'
  doi: 10.32614/CRAN.package.RcppEigen
- type: software
  title: rlang
  abstract: 'rlang: Functions for Base Types and Core R and ''Tidyverse'' Features'
  notes: Imports
  url: https://rlang.r-lib.org
  repository: https://CRAN.R-project.org/package=rlang
  authors:
  - family-names: Henry
    given-names: Lionel
    email: lionel@posit.co
  - family-names: Wickham
    given-names: Hadley
    email: hadley@posit.co
  year: '2025'
  doi: 10.32614/CRAN.package.rlang
- type: software
  title: countrycode
  abstract: 'countrycode: Convert Country Names and Country Codes'
  notes: Suggests
  url: https://vincentarelbundock.github.io/countrycode/
  repository: https://CRAN.R-project.org/package=countrycode
  authors:
  - family-names: Arel-Bundock
    given-names: Vincent
    email: vincent.arel-bundock@umontreal.ca
    orcid: https://orcid.org/0000-0003-2042-7063
  year: '2025'
  doi: 10.32614/CRAN.package.countrycode
- type: software
  title: dplyr
  abstract: 'dplyr: A Grammar of Data Manipulation'
  notes: Suggests
  url: https://dplyr.tidyverse.org
  repository: https://CRAN.R-project.org/package=dplyr
  authors:
  - family-names: Wickham
    given-names: Hadley
    email: hadley@posit.co
    orcid: https://orcid.org/0000-0003-4757-117X
  - family-names: François
    given-names: Romain
    orcid: https://orcid.org/0000-0002-2444-4226
  - family-names: Henry
    given-names: Lionel
  - family-names: Müller
    given-names: Kirill
    orcid: https://orcid.org/0000-0002-1416-3412
  - family-names: Vaughan
    given-names: Davis
    email: davis@posit.co
    orcid: https://orcid.org/0000-0003-4777-038X
  year: '2025'
  doi: 10.32614/CRAN.package.dplyr
- type: software
  title: ggdist
  abstract: 'ggdist: Visualizations of Distributions and Uncertainty'
  notes: Suggests
  url: https://mjskay.github.io/ggdist/
  repository: https://CRAN.R-project.org/package=ggdist
  authors:
  - family-names: Kay
    given-names: Matthew
    email: mjskay@northwestern.edu
  year: '2025'
  doi: 10.32614/CRAN.package.ggdist
- type: software
  title: ggplot2
  abstract: 'ggplot2: Create Elegant Data Visualisations Using the Grammar of Graphics'
  notes: Suggests
  url: https://ggplot2.tidyverse.org
  repository: https://CRAN.R-project.org/package=ggplot2
  authors:
  - family-names: Wickham
    given-names: Hadley
    email: hadley@posit.co
    orcid: https://orcid.org/0000-0003-4757-117X
  - family-names: Chang
    given-names: Winston
    orcid: https://orcid.org/0000-0002-1576-2126
  - family-names: Henry
    given-names: Lionel
  - family-names: Pedersen
    given-names: Thomas Lin
    email: thomas.pedersen@posit.co
    orcid: https://orcid.org/0000-0002-5147-4711
  - family-names: Takahashi
    given-names: Kohske
  - family-names: Wilke
    given-names: Claus
    orcid: https://orcid.org/0000-0002-7470-9261
  - family-names: Woo
    given-names: Kara
    orcid: https://orcid.org/0000-0002-5125-4188
  - family-names: Yutani
    given-names: Hiroaki
    orcid: https://orcid.org/0000-0002-3385-7233
  - family-names: Dunnington
    given-names: Dewey
    orcid: https://orcid.org/0000-0002-9415-4582
  - family-names: Brand
    given-names: Teun
    name-particle: van den
    orcid: https://orcid.org/0000-0002-9335-7468
  year: '2025'
  doi: 10.32614/CRAN.package.ggplot2
- type: software
  title: knitr
  abstract: 'knitr: A General-Purpose Package for Dynamic Report Generation in R'
  notes: Suggests
  url: https://yihui.org/knitr/
  repository: https://CRAN.R-project.org/package=knitr
  authors:
  - family-names: Xie
    given-names: Yihui
    email: xie@yihui.name
    orcid: https://orcid.org/0000-0003-0645-5666
  year: '2025'
  doi: 10.32614/CRAN.package.knitr
- type: software
  title: rmarkdown
  abstract: 'rmarkdown: Dynamic Documents for R'
  notes: Suggests
  url: https://pkgs.rstudio.com/rmarkdown/
  repository: https://CRAN.R-project.org/package=rmarkdown
  authors:
  - family-names: Allaire
    given-names: JJ
    email: jj@posit.co
  - family-names: Xie
    given-names: Yihui
    email: xie@yihui.name
    orcid: https://orcid.org/0000-0003-0645-5666
  - family-names: Dervieux
    given-names: Christophe
    email: cderv@posit.co
    orcid: https://orcid.org/0000-0003-4474-2498
  - family-names: McPherson
    given-names: Jonathan
    email: jonathan@posit.co
  - family-names: Luraschi
    given-names: Javier
  - family-names: Ushey
    given-names: Kevin
    email: kevin@posit.co
  - family-names: Atkins
    given-names: Aron
    email: aron@posit.co
  - family-names: Wickham
    given-names: Hadley
    email: hadley@posit.co
  - family-names: Cheng
    given-names: Joe
    email: joe@posit.co
  - family-names: Chang
    given-names: Winston
    email: winston@posit.co
  - family-names: Iannone
    given-names: Richard
    email: rich@posit.co
    orcid: https://orcid.org/0000-0003-3925-190X
  year: '2025'
  doi: 10.32614/CRAN.package.rmarkdown
- type: software
  title: scales
  abstract: 'scales: Scale Functions for Visualization'
  notes: Suggests
  url: https://scales.r-lib.org
  repository: https://CRAN.R-project.org/package=scales
  authors:
  - family-names: Wickham
    given-names: Hadley
    email: hadley@posit.co
  - family-names: Pedersen
    given-names: Thomas Lin
    email: thomas.pedersen@posit.co
    orcid: https://orcid.org/0000-0002-5147-4711
  - family-names: Seidel
    given-names: Dana
  year: '2025'
  doi: 10.32614/CRAN.package.scales
- type: software
  title: spelling
  abstract: 'spelling: Tools for Spell Checking in R'
  notes: Suggests
  url: https://ropensci.r-universe.dev/spelling
  repository: https://CRAN.R-project.org/package=spelling
  authors:
  - family-names: Ooms
    given-names: Jeroen
    email: jeroenooms@gmail.com
    orcid: https://orcid.org/0000-0002-4035-0289
  - family-names: Hester
    given-names: Jim
    email: james.hester@rstudio.com
  year: '2025'
  doi: 10.32614/CRAN.package.spelling
- type: software
  title: testthat
  abstract: 'testthat: Unit Testing for R'
  notes: Suggests
  url: https://testthat.r-lib.org
  repository: https://CRAN.R-project.org/package=testthat
  authors:
  - family-names: Wickham
    given-names: Hadley
    email: hadley@posit.co
  year: '2025'
  doi: 10.32614/CRAN.package.testthat
  version: '>= 3.0.0'
- type: software
  title: tidyr
  abstract: 'tidyr: Tidy Messy Data'
  notes: Suggests
  url: https://tidyr.tidyverse.org
  repository: https://CRAN.R-project.org/package=tidyr
  authors:
  - family-names: Wickham
    given-names: Hadley
    email: hadley@posit.co
  - family-names: Vaughan
    given-names: Davis
    email: davis@posit.co
  - family-names: Girlich
    given-names: Maximilian
  year: '2025'
  doi: 10.32614/CRAN.package.tidyr
- type: software
  title: BH
  abstract: 'BH: Boost C++ Header Files'
  notes: LinkingTo
  url: https://dirk.eddelbuettel.com/code/bh.html
  repository: https://CRAN.R-project.org/package=BH
  authors:
  - family-names: Eddelbuettel
    given-names: Dirk
    email: edd@debian.org
    orcid: https://orcid.org/0000-0001-6419-907X
  - family-names: Emerson
    given-names: John W.
  - family-names: Kane
    given-names: Michael J.
    orcid: https://orcid.org/0000-0003-1899-6662
  year: '2025'
  doi: 10.32614/CRAN.package.BH