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references.bib
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@article{knuth84,
author = {Knuth, Donald E.},
title = {Literate Programming},
year = {1984},
address = {USA},
volume = {27},
number = {2},
journal = {Comput. J.},
pages = {97–111},
numpages = {15}
}
@article{chambers2014,
author = {John M. Chambers},
title = {{Object-Oriented Programming, Functional Programming and R}},
volume = {29},
journal = {Statistical Science},
number = {2},
pages = {167 -- 180},
year = {2014},
}
@article{vallet2022,
title={Toward practical transparent verifiable and long-term reproducible research using Guix},
author={Vallet, Nicolas and Michonneau, David and Tournier, Simon},
journal={Scientific Data},
volume={9},
number={1},
pages={597},
year={2022},
publisher={Nature Publishing Group UK London}
}
@book{wickham2019,
title={Advanced r},
author={Wickham, Hadley},
year={2019},
url={https://adv-r.hadley.nz/},
publisher={CRC press}
}
@InProceedings{leisch2002,
author="Leisch, Friedrich",
editor="H{\"a}rdle, Wolfgang
and R{\"o}nz, Bernd",
title="Sweave: Dynamic Generation of Statistical Reports Using Literate Data Analysis",
booktitle="Compstat",
year="2002",
publisher="Physica-Verlag HD",
pages="575--580",
}
@InCollection{xie2014,
booktitle = {Implementing Reproducible Computational Research},
editor = {Victoria Stodden and Friedrich Leisch and Roger D. Peng},
title = {knitr: A Comprehensive Tool for Reproducible Research in {R}},
author = {Yihui Xie},
publisher = {Chapman and Hall/CRC},
year = {2014},
}
@book{wickham2023,
title={R Packages (2e)},
author={Hadley Wickham and Jenny Bryan},
url={https://r-pkgs.org/},
year={2023}
}
@Article{arel22,
title = {{modelsummary}: Data and Model Summaries in {R}},
author = {Vincent Arel-Bundock},
journal = {Journal of Statistical Software},
year = {2022},
volume = {103},
number = {1},
pages = {1--23},
}
@Manual{gohel23,
title = {flextable: Functions for Tabular Reporting},
author = {David Gohel and Panagiotis Skintzos},
year = {2023},
note = {https://ardata-fr.github.io/flextable-book/, https://davidgohel.github.io/flextable/},
}
@book{xie2020r,
title={R markdown cookbook},
author={Xie, Yihui and Dervieux, Christophe and Riederer, Emily},
year={2020},
publisher={Chapman and Hall/CRC}
}
@book{hammant2020,
title={Trunk-based Development and Branch by Abstraction},
author={Paul Hammant},
year={2020},
publisher={Leanpub}
}
@article{trisovic2022,
title={A large-scale study on research code quality and execution},
author={Trisovic, Ana and Lau, Matthew K and Pasquier, Thomas and Crosas, Merc{\`e}},
journal={Scientific Data},
volume={9},
number={1},
pages={60},
year={2022},
}
@article{peng2011,
title={Reproducible research in computational science},
author={Peng, Roger D},
journal={Science},
volume={334},
number={6060},
pages={1226--1227},
year={2011}
}
@misc{schoch2023,
author = {Chan, Chung-hong and Schoch, David},
title = {RANG: Reconstructing reproducible R computational environments},
publisher = {arXiv},
year = {2023}
}
@Manual{rochette2022,
title = {fusen: Build a Package from Rmarkdown Files},
author = {Sebastien Rochette},
year = {2022},
note = {https://thinkr-open.github.io/fusen/,
https://github.com/Thinkr-open/fusen},
}
@Article{landau2021,
title = {The targets R package: a dynamic Make-like function-oriented pipeline toolkit for reproducibility and high-performance computing},
author = {William Michael Landau},
journal = {Journal of Open Source Software},
year = {2021},
volume = {6},
number = {57},
pages = {2959}
}
@Article{wickham2019b,
title = {Welcome to the {tidyverse}},
author = {Hadley Wickham and Mara Averick and Jennifer Bryan and Winston Chang and Lucy D'Agostino McGowan and Romain François and Garrett Grolemund and Alex Hayes and Lionel Henry and Jim Hester and Max Kuhn and Thomas Lin Pedersen and Evan Miller and Stephan Milton Bache and Kirill Müller and Jeroen Ooms and David Robinson and Dana Paige Seidel and Vitalie Spinu and Kohske Takahashi and Davis Vaughan and Claus Wilke and Kara Woo and Hiroaki Yutani},
year = {2019},
journal = {Journal of Open Source Software},
volume = {4},
number = {43},
pages = {1686}
}
@Manual{firke2023,
title = {janitor: Simple Tools for Examining and Cleaning Dirty Data},
author = {Sam Firke},
year = {2023},
note = {https://github.com/sfirke/janitor,
https://sfirke.github.io/janitor/},
}
@Article{neupane2019,
author = {Bhandari Neupane, Jayanti and Neupane, Ram P. and Luo, Yuheng and Yoshida, Wesley Y. and Sun, Rui and Williams, Philip G.},
title = {Characterization of Leptazolines A–D, Polar Oxazolines from the Cyanobacterium Leptolyngbya sp., Reveals a Glitch with the “Willoughby–Hoye” Scripts for Calculating NMR Chemical Shifts},
journal = {Organic Letters},
volume = {21},
number = {20},
pages = {8449-8453},
year = {2019}
}