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CITATION.cff
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# -----------------------------------------------------------
# CITATION file created with {cffr} R package, v0.2.2
# See also: https://docs.ropensci.org/cffr/
# -----------------------------------------------------------
cff-version: 1.2.0
message: 'To cite package "worcs" in publications use:'
type: article
title: 'WORCS: A Workflow for Open Reproducible Code in Science'
authors:
- family-names: Van Lissa
given-names: Caspar J.
- family-names: Brandmaier
given-names: Andreas M.
- family-names: Brinkman
given-names: Loek
- family-names: Lamprecht
given-names: Anna-Lena
- family-names: Peikert
given-names: Aaron
- family-names: Struiksma
given-names: Marijn E.
- family-names: Vreede
given-names: Barbara M.I.
year: '2021'
journal: Data Science
volume: '4'
issue: '1'
publisher:
name: IOS Press
issn: 2451-8492
doi: 10.3233/DS-210031
abstract: 'Adopting open science principles can be challenging, requiring conceptual
education and training in the use of new tools. This paper introduces the Workflow
for Open Reproducible Code in Science (WORCS): A step-by-step procedure that researchers
can follow to make a research project open and reproducible. This workflow intends
to lower the threshold for adoption of open science principles. It is based on established
best practices, and can be used either in parallel to, or in absence of, top-down
requirements by journals, institutions, and funding bodies. To facilitate widespread
adoption, the WORCS principles have been implemented in the R package worcs , which
offers an RStudio project template and utility functions for specific workflow steps.
This paper introduces the conceptual workflow, discusses how it meets different
standards for open science, and addresses the functionality provided by the R implementation,
worcs . This paper is primarily targeted towards scholars conducting research projects
in R, conducting research that involves academic prose, analysis code, and tabular
data. However, the workflow is flexible enough to accommodate other scenarios, and
offers a starting point for customized solutions. The source code for the R package
and manuscript, and a list of examplesof WORCS projects , are available at https://github.com/cjvanlissa/worcs
.'
keywords:
- dynamic document generation
- Open science
- r
- reproducibility
- version control
start: '29'
end: '49'
repository: https://CRAN.R-project.org/package=worcs
repository-code: https://github.com/cjvanlissa/worcs
url: https://github.com/cjvanlissa/worcs
date-released: '2021-02-03'
contact:
- family-names: van Lissa
given-names: Caspar J.
email: c.j.vanlissa@uu.nl
orcid: https://orcid.org/0000-0002-0808-5024
references:
- type: software
title: methods
abstract: 'R: A Language and Environment for Statistical Computing'
notes: Imports
authors:
- name: R Core Team
location:
name: Vienna, Austria
year: '2022'
url: https://www.R-project.org/
institution:
name: R Foundation for Statistical Computing
- type: software
title: rmarkdown
abstract: 'rmarkdown: Dynamic Documents for R'
notes: Imports
authors:
- family-names: Allaire
given-names: JJ
email: jj@rstudio.com
- family-names: Xie
given-names: Yihui
email: xie@yihui.name
orcid: https://orcid.org/0000-0003-0645-5666
- family-names: McPherson
given-names: Jonathan
email: jonathan@rstudio.com
- family-names: Luraschi
given-names: Javier
email: javier@rstudio.com
- family-names: Ushey
given-names: Kevin
email: kevin@rstudio.com
- family-names: Atkins
given-names: Aron
email: aron@rstudio.com
- family-names: Wickham
given-names: Hadley
email: hadley@rstudio.com
- family-names: Cheng
given-names: Joe
email: joe@rstudio.com
- family-names: Chang
given-names: Winston
email: winston@rstudio.com
- family-names: Iannone
given-names: Richard
email: rich@rstudio.com
orcid: https://orcid.org/0000-0003-3925-190X
year: '2022'
url: https://CRAN.R-project.org/package=rmarkdown
- type: software
title: prereg
abstract: 'prereg: R Markdown Templates to Preregister Scientific Studies'
notes: Imports
authors:
- family-names: Aust
given-names: Frederik
email: frederik.aust@uni-koeln.de
orcid: https://orcid.org/0000-0003-4900-788X
- family-names: Spitzer
given-names: Lisa
email: lisa.spitzer95@yahoo.de
year: '2022'
url: https://CRAN.R-project.org/package=prereg
- type: software
title: gert
abstract: 'gert: Simple Git Client for R'
notes: Imports
authors:
- family-names: Ooms
given-names: Jeroen
email: jeroen@berkeley.edu
orcid: https://orcid.org/0000-0002-4035-0289
year: '2022'
url: https://CRAN.R-project.org/package=gert
- type: software
title: ranger
abstract: 'ranger: A Fast Implementation of Random Forests'
notes: Imports
authors:
- family-names: Wright
given-names: Marvin N.
- family-names: Wager
given-names: Stefan
- family-names: Probst
given-names: Philipp
year: '2022'
url: https://CRAN.R-project.org/package=ranger
- type: software
title: yaml
abstract: 'yaml: Methods to Convert R Data to YAML and Back'
notes: Imports
authors:
- family-names: Stephens
given-names: Jeremy
- family-names: Simonov
given-names: Kirill
- family-names: Xie
given-names: Yihui
- family-names: Dong
given-names: Zhuoer
- family-names: Wickham
given-names: Hadley
- family-names: Horner
given-names: Jeffrey
- name: reikoch
- family-names: Beasley
given-names: Will
- family-names: O'Connor
given-names: Brendan
- family-names: Warnes
given-names: Gregory R.
year: '2022'
url: https://CRAN.R-project.org/package=yaml
- type: software
title: digest
abstract: 'digest: Create Compact Hash Digests of R Objects'
notes: Imports
authors:
- family-names: Lucas
given-names: Dirk Eddelbuettel with contributions by Antoine
email: edd@debian.org
- family-names: Tuszynski
given-names: Jarek
- family-names: Bengtsson
given-names: Henrik
- family-names: Urbanek
given-names: Simon
- family-names: Frasca
given-names: Mario
- family-names: Lewis
given-names: Bryan
- family-names: Stokely
given-names: Murray
- family-names: Muehleisen
given-names: Hannes
- family-names: Murdoch
given-names: Duncan
- family-names: Hester
given-names: Jim
- family-names: Wu
given-names: Wush
- family-names: Kou
given-names: Qiang
- family-names: Onkelinx
given-names: Thierry
- family-names: Lang
given-names: Michel
- family-names: Simko
given-names: Viliam
- family-names: Hornik
given-names: Kurt
- family-names: Neal
given-names: Radford
- family-names: Bell
given-names: Kendon
- family-names: de Queljoe
given-names: Matthew
- family-names: Suruceanu
given-names: Ion
- family-names: Denney
given-names: Bill
- family-names: Schumacher
given-names: Dirk
- family-names: Chang.
given-names: and Winston
year: '2022'
url: https://CRAN.R-project.org/package=digest
- type: software
title: rticles
abstract: 'rticles: Article Formats for R Markdown'
notes: Imports
authors:
- family-names: Allaire
given-names: JJ
email: jj@rstudio.com
- 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@rstudio.com
orcid: https://orcid.org/0000-0003-4474-2498
- name: R Foundation
- family-names: Wickham
given-names: Hadley
email: hadley@rstudio.com
- name: Journal of Statistical Software
- family-names: Vaidyanathan
given-names: Ramnath
email: ramnath.vaidya@gmail.com
- name: Association for Computing Machinery
- family-names: Boettiger
given-names: Carl
email: cboettig@gmail.com
- name: Elsevier
- family-names: Broman
given-names: Karl
email: kbroman@gmail.com
- family-names: Mueller
given-names: Kirill
email: kirill.mueller@ivt.baug.ethz.ch
- family-names: Quast
given-names: Bastiaan
email: bquast@gmail.com
- family-names: Pruim
given-names: Randall
email: rpruim@gmail.com
- family-names: Marwick
given-names: Ben
email: bmarwick@uw.edu
- family-names: Wickham
given-names: Charlotte
email: cwickham@gmail.com
- family-names: Keyes
given-names: Oliver
email: okeyes@wikimedia.org
- family-names: Yu
given-names: Miao
email: yufreecas@gmail.com
- family-names: Emaasit
given-names: Daniel
email: daniel.emaasit@gmail.com
- family-names: Onkelinx
given-names: Thierry
email: thierry.onkelinx@inbo.be
- family-names: Gasparini
given-names: Alessandro
email: ellessenne@gmail.com
orcid: https://orcid.org/0000-0002-8319-7624
- family-names: Desautels
given-names: Marc-Andre
email: marc-andre.desautels@cstjean.qc.ca
- family-names: Leutnant
given-names: Dominik
email: leutnant@fh-muenster.de
orcid: https://orcid.org/0000-0003-3293-2315
- name: MDPI
- name: Taylor and Francis
- family-names: Ögreden
given-names: Oguzhan
orcid: https://orcid.org/0000-0002-9949-3348
- family-names: Hance
given-names: Dalton
email: dhance@usgs.gov
- family-names: Nüst
given-names: Daniel
email: daniel.nuest@uni-muenster.de
orcid: https://orcid.org/0000-0002-0024-5046
- family-names: Uvesten
given-names: Petter
email: petter.uvesten.7362@student.lu.se
- family-names: Campitelli
given-names: Elio
email: elio.campitelli@cima.fcen.uba.ar
orcid: https://orcid.org/0000-0002-7742-9230
- family-names: Muschelli
given-names: John
email: muschellij2@gmail.com
orcid: https://orcid.org/0000-0001-6469-1750
- family-names: Hayes
given-names: Alex
email: alexpghayes@gmail.com
orcid: https://orcid.org/0000-0002-4985-5160
- family-names: Kamvar
given-names: Zhian N.
email: zkamvar@gmail.com
orcid: https://orcid.org/0000-0003-1458-7108
- family-names: Ross
given-names: Noam
email: noam.ross@gmail.com
orcid: https://orcid.org/0000-0002-2136-0000
- family-names: Cannoodt
given-names: Robrecht
email: rcannood@gmail.com
orcid: https://orcid.org/0000-0003-3641-729X
- family-names: Luguern
given-names: Duncan
email: duncan.luguern@gmail.com
- family-names: Kaplan
given-names: David M.
email: dmkaplan2000@gmail.com
orcid: https://orcid.org/0000-0001-6087-359X
- family-names: Kreutzer
given-names: Sebastian
email: sebastian.kreutzer@aber.ac.uk
orcid: https://orcid.org/0000-0002-0734-2199
- family-names: Wang
given-names: Shixiang
email: w_shixiang@163.com
orcid: https://orcid.org/0000-0001-9855-7357
- family-names: Hesselberth
given-names: Jay
email: jay.hesselberth@gmail.com
orcid: https://orcid.org/0000-0002-6299-179X
year: '2022'
url: https://CRAN.R-project.org/package=rticles
- type: software
title: remotes
abstract: 'remotes: R Package Installation from Remote Repositories, Including ''GitHub'''
notes: Suggests
authors:
- family-names: Csárdi
given-names: Gábor
email: csardi.gabor@gmail.com
- family-names: Hester
given-names: Jim
email: jim.hester@rstudio.com
- family-names: Wickham
given-names: Hadley
- family-names: Chang
given-names: Winston
- family-names: Morgan
given-names: Martin
- family-names: Tenenbaum
given-names: Dan
year: '2022'
url: https://CRAN.R-project.org/package=remotes
- type: software
title: tinytex
abstract: 'tinytex: Helper Functions to Install and Maintain TeX Live, and Compile
LaTeX Documents'
notes: Suggests
authors:
- family-names: Xie
given-names: Yihui
email: xie@yihui.name
orcid: https://orcid.org/0000-0003-0645-5666
year: '2022'
url: https://CRAN.R-project.org/package=tinytex
- type: software
title: renv
abstract: 'renv: Project Environments'
notes: Suggests
authors:
- family-names: Ushey
given-names: Kevin
email: kevin@rstudio.com
year: '2022'
url: https://CRAN.R-project.org/package=renv
- type: software
title: knitr
abstract: 'knitr: A General-Purpose Package for Dynamic Report Generation in R'
notes: Suggests
authors:
- family-names: Xie
given-names: Yihui
email: xie@yihui.name
orcid: https://orcid.org/0000-0003-0645-5666
year: '2022'
url: https://CRAN.R-project.org/package=knitr
- type: software
title: missRanger
abstract: 'missRanger: Fast Imputation of Missing Values'
notes: Suggests
authors:
- family-names: Mayer
given-names: Michael
email: mayermichael79@gmail.com
year: '2022'
url: https://CRAN.R-project.org/package=missRanger
- type: software
title: testthat
abstract: 'testthat: Unit Testing for R'
notes: Suggests
authors:
- family-names: Wickham
given-names: Hadley
email: hadley@rstudio.com
year: '2022'
url: https://CRAN.R-project.org/package=testthat
version: '>= 2.1.0'