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CITATION.cff
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# -----------------------------------------------------------
# CITATION file created with {cffr} R package, v0.5.0
# See also: https://docs.ropensci.org/cffr/
# -----------------------------------------------------------
cff-version: 1.2.0
message: 'To cite package "bpmodels" in publications use:'
type: software
license: MIT
title: 'bpmodels: Simulating and Analysing Transmission Chain Statistics using Branching
Process Models'
version: 0.3.1
abstract: Provides methods to simulate and analyse the size and length of branching
processes with an arbitrary offspring distribution. These can be used, for example,
to analyse the distribution of chain sizes or length of infectious disease outbreaks,
as discussed in Farrington et al. (2003) <doi:10.1093/biostatistics/4.2.279>.
authors:
- family-names: Azam
given-names: James M.
email: james.azam@lshtm.ac.uk
orcid: https://orcid.org/0000-0001-5782-7330
- family-names: Finger
given-names: Flavio
email: flavio.finger@epicentre.msf.org
orcid: https://orcid.org/0000-0002-8613-5170
- family-names: Funk
given-names: Sebastian
email: sebastian.funk@lshtm.ac.uk
orcid: https://orcid.org/0000-0002-2842-3406
preferred-citation:
type: manual
title: 'bpmodels: Analysing transmission chain statistics using branching process
models'
authors:
- name: Sebastian Funk
- name: Flavio Finger
- name: James M. Azam
year: '2023'
url: https://github.com/epiverse-trace/bpmodels/
repository-code: https://github.com/epiverse-trace/bpmodels
url: https://epiverse-trace.github.io/bpmodels/
contact:
- family-names: Azam
given-names: James M.
email: james.azam@lshtm.ac.uk
orcid: https://orcid.org/0000-0001-5782-7330
keywords:
- branching-process
- epidemic-dynamics
- epidemic-modelling
- epidemic-simulations
- epidemiology
- epiverse
- outbreak-simulator
- r
- r-package
- transmission-chain
- transmission-chain-reconstruction
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
location:
name: Vienna, Austria
year: '2023'
institution:
name: R Foundation for Statistical Computing
version: '>= 3.6.0'
- type: software
title: bookdown
abstract: 'bookdown: Authoring Books and Technical Documents with R Markdown'
notes: Suggests
url: https://pkgs.rstudio.com/bookdown/
repository: https://CRAN.R-project.org/package=bookdown
authors:
- family-names: Xie
given-names: Yihui
email: xie@yihui.name
orcid: https://orcid.org/0000-0003-0645-5666
year: '2023'
- 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: '2023'
- 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
year: '2023'
- 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: '2023'
- type: software
title: lubridate
abstract: 'lubridate: Make Dealing with Dates a Little Easier'
notes: Suggests
url: https://lubridate.tidyverse.org
repository: https://CRAN.R-project.org/package=lubridate
authors:
- family-names: Spinu
given-names: Vitalie
email: spinuvit@gmail.com
- family-names: Grolemund
given-names: Garrett
- family-names: Wickham
given-names: Hadley
year: '2023'
- 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: '2023'
- type: software
title: spelling
abstract: 'spelling: Tools for Spell Checking in R'
notes: Suggests
url: https://docs.ropensci.org/spelling/
repository: https://CRAN.R-project.org/package=spelling
authors:
- family-names: Ooms
given-names: Jeroen
email: jeroen@berkeley.edu
orcid: https://orcid.org/0000-0002-4035-0289
- family-names: Hester
given-names: Jim
email: james.hester@rstudio.com
year: '2023'
- 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: '2023'
- type: software
title: truncdist
abstract: 'truncdist: Truncated Random Variables'
notes: Suggests
repository: https://CRAN.R-project.org/package=truncdist
authors:
- family-names: Novomestky
given-names: Frederick
email: fn334@nyu.edu
- family-names: Nadarajah
given-names: Saralees
email: saralees.nadarajah@manchester.ac.uk
year: '2023'
- 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: '2023'