CITATION.cff

# --------------------------------------------
# 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 "simulist" in publications use:'
type: software
license: MIT
title: 'simulist: Simulate Disease Outbreak Line List and Contacts Data'
version: 0.3.0.9000
doi: 10.5281/zenodo.10471458
abstract: Tools to simulate realistic raw case data for an epidemic in the form of
  line lists and contacts using a branching process. Simulated outbreaks are parameterised
  with epidemiological parameters and can have age structured populations, age-stratified
  hospitalisation and death risk and time-varying case fatality risk.
authors:
- family-names: Lambert
  given-names: Joshua W.
  email: joshua.lambert@lshtm.ac.uk
  orcid: https://orcid.org/0000-0001-5218-3046
- family-names: Tamayo
  given-names: Carmen
  email: carmen.tamayo-cuartero@lshtm.ac.uk
  orcid: https://orcid.org/0000-0003-4184-2864
preferred-citation:
  type: manual
  title: 'simulist: Simulate Disease Outbreak Line List and Contacts Data'
  authors:
  - family-names: Lambert
    given-names: Joshua W.
    email: joshua.lambert@lshtm.ac.uk
    orcid: https://orcid.org/0000-0001-5218-3046
  - family-names: Tamayo
    given-names: Carmen
    email: carmen.tamayo-cuartero@lshtm.ac.uk
    orcid: https://orcid.org/0000-0003-4184-2864
  year: '2024'
  doi: 10.5281/zenodo.10471458
  url: https://epiverse-trace.github.io/simulist/
repository-code: https://github.com/epiverse-trace/simulist
url: https://epiverse-trace.github.io/simulist/
contact:
- family-names: Lambert
  given-names: Joshua W.
  email: joshua.lambert@lshtm.ac.uk
  orcid: https://orcid.org/0000-0001-5218-3046
keywords:
- epidemiology
- epiverse
- linelist
- outbreaks
- r
- r-package
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: '2024'
  version: '>= 3.6.0'
- 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: '2024'
  doi: 10.32614/CRAN.package.checkmate
- type: software
  title: epiparameter
  abstract: 'epiparameter: Library of Epidemiological Parameters with Helper Functions
    and Classes'
  notes: Imports
  url: https://github.com/epiverse-trace/epiparameter/
  authors:
  - family-names: Lambert
    given-names: Joshua W.
    email: joshua.lambert@lshtm.ac.uk
    orcid: https://orcid.org/0000-0001-5218-3046
  - family-names: Kucharski
    given-names: Adam
    email: adam.kucharski@lshtm.ac.uk
    orcid: https://orcid.org/0000-0001-8814-9421
  - family-names: Tamayo
    given-names: Carmen
    email: carmen.tamayo-cuartero@lshtm.ac.uk
    orcid: https://orcid.org/0000-0003-4184-2864
  year: '2024'
- type: software
  title: randomNames
  abstract: 'randomNames: Generate Random Given and Surnames'
  notes: Imports
  url: https://centerforassessment.github.io/randomNames/
  repository: https://CRAN.R-project.org/package=randomNames
  authors:
  - family-names: Betebenner
    given-names: Damian W.
    email: dbetebenner@nciea.org
  year: '2024'
  doi: 10.32614/CRAN.package.randomNames
- 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: '2024'
  doi: 10.32614/CRAN.package.rlang
- type: software
  title: stats
  abstract: 'R: A Language and Environment for Statistical Computing'
  notes: Imports
  authors:
  - name: R Core Team
  institution:
    name: R Foundation for Statistical Computing
    address: Vienna, Austria
  year: '2024'
- 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: '2024'
  doi: 10.32614/CRAN.package.dplyr
- type: software
  title: epicontacts
  abstract: 'epicontacts: Handling, Visualisation and Analysis of Epidemiological
    Contacts'
  notes: Suggests
  url: https://www.repidemicsconsortium.org/epicontacts/
  repository: https://CRAN.R-project.org/package=epicontacts
  authors:
  - family-names: Campbell
    given-names: Finlay
    email: finlaycampbell93@gmail.com
  - family-names: Jombart
    given-names: Thibaut
    email: thibautjombart@gmail.com
  - family-names: Randhawa
    given-names: Nistara
    email: nrandhawa@ucdavis.edu
  - family-names: Sudre
    given-names: Bertrand
    email: Bertrand.Sudre@ecdc.europa.eu
  - family-names: Nagraj
    given-names: VP
    email: nagraj@nagraj.net
  - family-names: Crellen
    given-names: Thomas
    email: tc13@sanger.ac.uk
  - family-names: Kamvar
    given-names: Zhian N.
    email: zkamvar@gmail.com
  year: '2024'
  doi: 10.32614/CRAN.package.epicontacts
  version: '>= 1.1.3'
- 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: '2024'
  doi: 10.32614/CRAN.package.ggplot2
- type: software
  title: incidence2
  abstract: 'incidence2: Compute, Handle and Plot Incidence of Dated Events'
  notes: Suggests
  url: https://www.reconverse.org/incidence2/
  repository: https://CRAN.R-project.org/package=incidence2
  authors:
  - family-names: Taylor
    given-names: Tim
    email: tim.taylor@hiddenelephants.co.uk
    orcid: https://orcid.org/0000-0002-8587-7113
  year: '2024'
  doi: 10.32614/CRAN.package.incidence2
  version: '>= 2.1.0'
- 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: '2024'
  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: '2024'
  doi: 10.32614/CRAN.package.rmarkdown
- 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: '2024'
  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: '2024'
  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: '2024'
  doi: 10.32614/CRAN.package.tidyr