Last updated: 2025-05-25

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Knit directory: GuadalShiftR/

This reproducible R Markdown analysis was created with workflowr (version 1.7.1). The Checks tab describes the reproducibility checks that were applied when the results were created. The Past versions tab lists the development history.

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R packages used

Package Version Citation
base 4.4.2 R Core Team (2024a)
bayesplot 1.11.1 Gabry et al. (2019); Gabry and Mahr (2024)
bayestestR 0.15.0 Makowski, Ben-Shachar, and Lüdecke (2019)
knitr 1.48 Xie (2014); Xie (2015); Xie (2024)
librarian 1.8.1 Quintans (2021)
numDeriv 2016.8.1.1 Gilbert and Varadhan (2019)
parallel 4.4.2 R Core Team (2024b)
reshape2 1.4.4 Wickham (2007)
rmarkdown 2.29 Xie, Allaire, and Grolemund (2018); Xie, Dervieux, and Riederer (2020); Allaire et al. (2024)
rstan 2.32.6 Stan Development Team (2024)
runjags 2.2.2.4 Denwood (2016)
tidyverse 2.0.0 Wickham et al. (2019)
workflowr 1.7.1 Blischak, Carbonetto, and Stephens (2019)

You can paste this paragraph directly in your report:

We used R version 4.4.2 (R Core Team 2024a) and the following R packages: bayesplot v. 1.11.1 (Gabry et al. 2019; Gabry and Mahr 2024), bayestestR v. 0.15.0 (Makowski, Ben-Shachar, and Lüdecke 2019), knitr v. 1.48 (Xie 2014, 2015, 2024), librarian v. 1.8.1 (Quintans 2021), numDeriv v. 2016.8.1.1 (Gilbert and Varadhan 2019), parallel v. 4.4.2 (R Core Team 2024b), reshape2 v. 1.4.4 (Wickham 2007), rmarkdown v. 2.29 (Xie, Allaire, and Grolemund 2018; Xie, Dervieux, and Riederer 2020; Allaire et al. 2024), rstan v. 2.32.6 (Stan Development Team 2024), runjags v. 2.2.2.4 (Denwood 2016), tidyverse v. 2.0.0 (Wickham et al. 2019), workflowr v. 1.7.1 (Blischak, Carbonetto, and Stephens 2019), running in RStudio v. 2024.9.0.375 (Posit team 2024).

Package citations

Allaire, JJ, Yihui Xie, Christophe Dervieux, Jonathan McPherson, Javier Luraschi, Kevin Ushey, Aron Atkins, et al. 2024. rmarkdown: Dynamic Documents for r. https://github.com/rstudio/rmarkdown.
Blischak, John D, Peter Carbonetto, and Matthew Stephens. 2019. “Creating and Sharing Reproducible Research Code the Workflowr Way [Version 1; Peer Review: 3 Approved].” F1000Research 8 (1749). https://doi.org/10.12688/f1000research.20843.1.
Denwood, Matthew J. 2016. “runjags: An R Package Providing Interface Utilities, Model Templates, Parallel Computing Methods and Additional Distributions for MCMC Models in JAGS.” Journal of Statistical Software 71 (9): 1–25. https://doi.org/10.18637/jss.v071.i09.
Gabry, Jonah, and Tristan Mahr. 2024. “bayesplot: Plotting for Bayesian Models.” https://mc-stan.org/bayesplot/.
Gabry, Jonah, Daniel Simpson, Aki Vehtari, Michael Betancourt, and Andrew Gelman. 2019. “Visualization in Bayesian Workflow.” J. R. Stat. Soc. A 182: 389–402. https://doi.org/10.1111/rssa.12378.
Gilbert, Paul, and Ravi Varadhan. 2019. numDeriv: Accurate Numerical Derivatives. https://CRAN.R-project.org/package=numDeriv.
Makowski, Dominique, Mattan S. Ben-Shachar, and Daniel Lüdecke. 2019. “bayestestR: Describing Effects and Their Uncertainty, Existence and Significance Within the Bayesian Framework.” Journal of Open Source Software 4 (40): 1541. https://doi.org/10.21105/joss.01541.
Posit team. 2024. RStudio: Integrated Development Environment for r. Boston, MA: Posit Software, PBC. http://www.posit.co/.
Quintans, Desi. 2021. librarian: Install, Update, Load Packages from CRAN, “GitHub,” and “Bioconductor” in One Step. https://CRAN.R-project.org/package=librarian.
R Core Team. 2024a. R: A Language and Environment for Statistical Computing. Vienna, Austria: R Foundation for Statistical Computing. https://www.R-project.org/.
———. 2024b. R: A Language and Environment for Statistical Computing. Vienna, Austria: R Foundation for Statistical Computing. https://www.R-project.org/.
Stan Development Team. 2024. “RStan: The R Interface to Stan.” https://mc-stan.org/.
Wickham, Hadley. 2007. “Reshaping Data with the reshape Package.” Journal of Statistical Software 21 (12): 1–20. http://www.jstatsoft.org/v21/i12/.
Wickham, Hadley, Mara Averick, Jennifer Bryan, Winston Chang, Lucy D’Agostino McGowan, Romain François, Garrett Grolemund, et al. 2019. “Welcome to the tidyverse.” Journal of Open Source Software 4 (43): 1686. https://doi.org/10.21105/joss.01686.
Xie, Yihui. 2014. “knitr: A Comprehensive Tool for Reproducible Research in R.” In Implementing Reproducible Computational Research, edited by Victoria Stodden, Friedrich Leisch, and Roger D. Peng. Chapman; Hall/CRC.
———. 2015. Dynamic Documents with R and Knitr. 2nd ed. Boca Raton, Florida: Chapman; Hall/CRC. https://yihui.org/knitr/.
———. 2024. knitr: A General-Purpose Package for Dynamic Report Generation in r. https://yihui.org/knitr/.
Xie, Yihui, J. J. Allaire, and Garrett Grolemund. 2018. R Markdown: The Definitive Guide. Boca Raton, Florida: Chapman; Hall/CRC. https://bookdown.org/yihui/rmarkdown.
Xie, Yihui, Christophe Dervieux, and Emily Riederer. 2020. R Markdown Cookbook. Boca Raton, Florida: Chapman; Hall/CRC. https://bookdown.org/yihui/rmarkdown-cookbook.