references.bib

@online{rodrigoBetaCauchyCauchyBECCA2025,
  title = {A {{Beta Cauchy-Cauchy}} ({{BECCA}}) Shrinkage Prior for {{Bayesian}} Variable Selection},
  author = {Rodrigo, Linduni M. and Kohn, Robert and Afshar, Hadi M. and Cripps, Sally},
  date = {2025-01-13},
  eprint = {2501.07061},
  eprinttype = {arXiv},
  eprintclass = {stat},
  doi = {10.48550/arXiv.2501.07061},
  url = {http://arxiv.org/abs/2501.07061},
  pubstate = {prepublished}
}

@online{kohnsARR2PriorFlexible2024a,
  title = {The {{ARR2}} Prior: Flexible Predictive Prior Definition for {{Bayesian}} Auto-Regressions},
  shorttitle = {The {{ARR2}} Prior},
  author = {Kohns, David and Kallioinen, Noa and McLatchie, Yann and Vehtari, Aki},
  date = {2024-05-31},
  eprint = {2405.19920},
  eprinttype = {arXiv},
  eprintclass = {econ, stat},
  url = {http://arxiv.org/abs/2405.19920},
  urldate = {2024-09-17},
  abstract = {We present the ARR2 prior, a joint prior over the auto-regressive components in Bayesian time-series models and their induced \$R\textasciicircum 2\$. Compared to other priors designed for times-series models, the ARR2 prior allows for flexible and intuitive shrinkage. We derive the prior for pure auto-regressive models, and extend it to auto-regressive models with exogenous inputs, and state-space models. Through both simulations and real-world modelling exercises, we demonstrate the efficacy of the ARR2 prior in improving sparse and reliable inference, while showing greater inference quality and predictive performance than other shrinkage priors. An open-source implementation of the prior is provided.},
  pubstate = {prepublished},
  keywords = {Economics - Econometrics,Statistics - Computation}
}


@article{vanzwetDefaultPriorRegression2018,
  title = {A Default Prior for Regression Coefficients},
  author = {{van Zwet}, Erik},
  year = {2018},
  month = oct,
  journal = {arXiv:1809.08449 [stat]},
  eprint = {1809.08449},
  primaryclass = {stat},
  archiveprefix = {arXiv}
}

@article{simpsonPenalisingModelComponent2017,
  title = {Penalising {{Model Component Complexity}}: {{A Principled}}, {{Practical Approach}} to {{Constructing Priors}}},
  shorttitle = {Penalising {{Model Component Complexity}}},
  author = {Simpson, Daniel and Rue, H{\aa}vard and Riebler, Andrea and Martins, Thiago G. and S{\o}rbye, Sigrunn H.},
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  doi = {10.1214/16-STS576},
  langid = {english}
}

@article{ghoshUseCauchyPrior2018,
  title = {On the {{Use}} of {{Cauchy Prior Distributions}} for {{Bayesian Logistic Regression}}},
  author = {Ghosh, Joyee and Li, Yingbo and Mitra, Robin},
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  doi = {10.1214/17-BA1051},
  langid = {english}
}

@book{gelmanRegressionOtherStories2020,
  title = {Regression and {{Other Stories}}},
  author = {Gelman, Andrew and Hill, Jennifer and Vehtari, Aki},
  year = {2020},
  publisher = {Cambridge University Press},
  address = {S.l.},
  isbn = {978-1-107-02398-7},
  langid = {english},
  annotation = {OCLC: 1150969622}
}

@article{gelmanPriorCanOften2017,
  title = {The {{Prior Can Often Only Be Understood}} in the {{Context}} of the {{Likelihood}}},
  author = {Gelman, Andrew and Simpson, Daniel and Betancourt, Michael},
  year = {2017},
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  journal = {Entropy},
  volume = {19},
  number = {10},
  pages = {555},
  issn = {1099-4300},
  doi = {10.3390/e19100555},
  langid = {english}
}

@article{piironenSparsityInformationRegularization2017,
  title = {Sparsity Information and Regularization in the Horseshoe and Other Shrinkage Priors},
  author = {Piironen, Juho and Vehtari, Aki},
  year = {2017},
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  journal = {Electronic Journal of Statistics},
  volume = {11},
  number = {2},
  issn = {1935-7524},
  doi = {10.1214/17-EJS1337SI}
}

@article{aguilarIntuitiveJointPriors2023,
  title = {Intuitive Joint Priors for {{Bayesian}} Linear Multilevel Models: {{The R2D2M2}} Prior},
  shorttitle = {Intuitive Joint Priors for {{Bayesian}} Linear Multilevel Models},
  author = {Aguilar, Javier Enrique and B{\"u}rkner, Paul-Christian},
  year = {2023},
  month = jan,
  journal = {Electronic Journal of Statistics},
  volume = {17},
  number = {1},
  issn = {1935-7524},
  doi = {10.1214/23-EJS2136}
}

@article{zhangBayesianRegressionUsing2022a,
  title = {Bayesian {{Regression Using}} a {{Prior}} on the {{Model Fit}}: {{The R2-D2 Shrinkage Prior}}},
  shorttitle = {Bayesian {{Regression Using}} a {{Prior}} on the {{Model Fit}}},
  author = {Zhang, Yan Dora and Naughton, Brian P. and Bondell, Howard D. and Reich, Brian J.},
  year = {2022},
  month = apr,
  journal = {Journal of the American Statistical Association},
  volume = {117},
  number = {538},
  pages = {862--874},
  issn = {0162-1459, 1537-274X},
  doi = {10.1080/01621459.2020.1825449},
  langid = {english}
}

@misc{aguilarGeneralizedDecompositionPriors2024,
  title = {Generalized {{Decomposition Priors}} on {{R2}}},
  author = {Aguilar, Javier Enrique and B{\"u}rkner, Paul-Christian},
  year = {2024},
  month = jan,
  number = {arXiv:2401.10180},
  eprint = {2401.10180},
  primaryclass = {stat},
  publisher = {arXiv},
  archiveprefix = {arXiv}
}

@misc{meyerNonWeaklyInformativePriors2023,
  title = {On {{Non-}} and {{Weakly-Informative Priors}} for the {{Conway-Maxwell-Poisson}} ({{COM-Poisson}}) {{Distribution}}},
  author = {Meyer, Mark J. and Graye, Amia and Sellers, Kimberly F.},
  year = {2023},
  month = nov,
  number = {arXiv:2311.18053},
  eprint = {2311.18053},
  primaryclass = {stat},
  publisher = {arXiv},
  archiveprefix = {arXiv},
  langid = {english}
}

@article{ghoshDefaultBayesianPriors2003,
  title = {Default {{Bayesian Priors}} for {{Regression Models}} with {{First-Order Autoregressive Residuals}}},
  author = {Ghosh, Malay and Heo, Jungeun},
  year = {2003},
  journal = {Journal of Time Series Analysis},
  volume = {24},
  number = {3},
  pages = {269--282},
  issn = {1467-9892},
  doi = {10.1111/1467-9892.00307},
  langid = {english}
}

@misc{yanchenkoR2D2PriorGeneralized2024,
  title = {The {{R2D2 Prior}} for {{Generalized Linear Mixed Models}}},
  author = {Yanchenko, Eric and Bondell, Howard D. and Reich, Brian J.},
  year = {2024},
  month = jan,
  number = {arXiv:2111.10718},
  eprint = {2111.10718},
  primaryclass = {stat},
  publisher = {arXiv},
  doi = {10.48550/arXiv.2111.10718},
  archiveprefix = {arXiv}
}

@article{xuBayesianInference1ball2024,
  title = {Bayesian Inference with the {\emph{l}} 1-Ball Prior: Solving Combinatorial Problems with Exact Zeros},
  shorttitle = {Bayesian Inference with the {\emph{l}} 1-Ball Prior},
  author = {Xu, Maoran and Duan, Leo L},
  year = {2024},
  month = feb,
  journal = {Journal of the Royal Statistical Society Series B: Statistical Methodology},
  volume = {85},
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  issn = {1369-7412, 1467-9868},
  doi = {10.1093/jrsssb/qkad076},
  langid = {english}
}

@article{juarezModelBasedClusteringNonGaussian2010,
  title = {Model-{{Based Clustering}} of {{Non-Gaussian Panel Data Based}} on {{Skew-}} {\emph{t}} {{Distributions}}},
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  doi = {10.1198/jbes.2009.07145},
  langid = {english}
}

@misc{vehtariDefaultPriorNegativebinomial2024,
  title = {Default Prior for Negative-Binomial Shape Parameter},
  author = {Vehtari, Aki},
  year = {2024},
  month = mar,
  howpublished = {https://users.aalto.fi/{\textasciitilde}ave/casestudies/Priors/negbinomial\_shape\_prior.html},
  langid = {english}
}

@article{dunsonAutomatedPriorChoice2017,
  title = {Toward {{Automated Prior Choice}}},
  author = {Dunson, David B.},
  year = {2017},
  month = feb,
  journal = {Statistical Science},
  volume = {32},
  number = {1},
  pages = {41--43},
  publisher = {Institute of Mathematical Statistics},
  issn = {0883-4237, 2168-8745},
  doi = {10.1214/16-STS607}
}

@article{sorbyePenalisedComplexityPriors2017,
  title = {Penalised {{Complexity Priors}} for {{Stationary Autoregressive Processes}}},
  author = {S{\o}rbye, Sigrunn Holbek and Rue, H{\aa}vard},
  year = {2017},
  journal = {Journal of Time Series Analysis},
  volume = {38},
  number = {6},
  pages = {923--935},
  issn = {1467-9892},
  doi = {10.1111/jtsa.12242},
  copyright = {Copyright {\copyright} 2017 John Wiley \& Sons, Ltd},
  langid = {english}
}

@article{boonstraDefaultPriorsIntercept2019a,
  title = {Default {{Priors}} for the {{Intercept Parameter}} in {{Logistic Regressions}}},
  author = {Boonstra, Philip S. and Barbaro, Ryan P. and Sen, Ananda},
  year = {2019},
  month = may,
  journal = {Computational statistics \& data analysis},
  volume = {133},
  pages = {245--256},
  issn = {0167-9473},
  doi = {10.1016/j.csda.2018.10.014},
  pmcid = {PMC6748335},
  pmid = {31530966}
}

@article{greenlandPenalizationBiasReduction2015,
  title = {Penalization, Bias Reduction, and Default Priors in Logistic and Related Categorical and Survival Regressions},
  author = {Greenland, Sander and Mansournia, Mohammad Ali},
  year = {2015},
  journal = {Statistics in Medicine},
  volume = {34},
  number = {23},
  pages = {3133--3143},
  issn = {1097-0258},
  doi = {10.1002/sim.6537},
  copyright = {Copyright {\copyright} 2015 John Wiley \& Sons, Ltd.},
  langid = {english}
}

@article{villaObjectivePriorNumber2014,
  title = {Objective {{Prior}} for the {{Number}} of {{Degrees}} of {{Freedom}} of a t {{Distribution}}},
  author = {Villa, Cristiano and Walker, Stephen G.},
  year = {2014},
  month = mar,
  journal = {Bayesian Analysis},
  volume = {9},
  number = {1},
  issn = {1936-0975},
  doi = {10.1214/13-BA854}
}

@article{winterPoissonRegressionLinguists2021,
  title = {Poisson Regression for Linguists: {{A}} Tutorial Introduction to Modelling Count Data with Brms},
  shorttitle = {Poisson Regression for Linguists},
  author = {Winter, Bodo and B{\"u}rkner, Paul-Christian},
  year = {2021},
  month = nov,
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  pages = {e12439},
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  doi = {10.1111/lnc3.12439},
  langid = {english}
}

@article{geissingerCaseBetaRegression2022,
  title = {A Case for Beta Regression in the Natural Sciences},
  author = {Geissinger, Emilie A. and Khoo, Celyn L. L. and Richmond, Isabella C. and Faulkner, Sally J. M. and Schneider, David C.},
  year = {2022},
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  doi = {10.1002/ecs2.3940},
  langid = {english}
}

@misc{brehmSelectionInverseGamma2021,
  title = {Selection of Inverse Gamma and Half-t Priors for Hierarchical Models: Sensitivity and Recommendations},
  shorttitle = {Selection of Inverse Gamma and Half-t Priors for Hierarchical Models},
  author = {Brehm, Zachary and Wagner, Aaron and VonKaenel, Erik and Burton, David and Weisenthal, Samuel J. and Cole, Martin and Pang, Yiping and Thurston, Sally W.},
  year = {2021},
  month = aug,
  number = {arXiv:2108.12045},
  eprint = {2108.12045},
  primaryclass = {stat},
  publisher = {arXiv},
  doi = {10.48550/arXiv.2108.12045},
  archiveprefix = {arXiv}
}

@misc{betancourtOrdinalRegression2019,
  title = {Ordinal {{Regression}}},
  author = {Betancourt, Michael},
  year = {2019},
  howpublished = {https://betanalpha.github.io/assets/case\_studies/ordinal\_regression.html}
}

@article{vanzwetProposalInformativeDefault2022,
  title = {A {{Proposal}} for {{Informative Default Priors Scaled}} by the {{Standard Error}} of {{Estimates}}},
  author = {{van Zwet}, Erik and Gelman, Andrew},
  year = {2022},
  month = jan,
  journal = {The American Statistician},
  volume = {76},
  number = {1},
  pages = {1--9},
  issn = {0003-1305, 1537-2731},
  doi = {10.1080/00031305.2021.1938225},
  langid = {english}
}

@misc{PriorDistributionsRstanarm,
  title = {Prior {{Distributions}} for Rstanarm {{Models}}},
  howpublished = {http://mc-stan.org/rstanarm/articles/priors.html},
  langid = {english}
}

@article{friedrichRoleBenchmarkingData2024,
  title = {On the Role of Benchmarking Data Sets and Simulations in Method Comparison Studies},
  author = {Friedrich, Sarah and Friede, Tim},
  year = {2024},
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  volume = {66},
  number = {1},
  pages = {2200212},
  issn = {1521-4036},
  doi = {10.1002/bimj.202200212},
  copyright = {{\copyright} 2023 The Authors. Biometrical Journal published by Wiley-VCH GmbH.},
  langid = {english}
}

@misc{wilstrupSymbolicRegressionOutperforms2021,
  title = {Symbolic Regression Outperforms Other Models for Small Data Sets},
  author = {Wilstrup, Casper and Kasak, Jaan},
  year = {2021},
  month = may,
  number = {arXiv:2103.15147},
  eprint = {2103.15147},
  primaryclass = {cs},
  publisher = {arXiv},
  doi = {10.48550/arXiv.2103.15147},
  archiveprefix = {arXiv}
}

@article{hoffmannBenchmarkingClassificationRegression2019,
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  author = {Hoffmann, Frank and Bertram, Torsten and Mikut, Ralf and Reischl, Markus and Nelles, Oliver},
  year = {2019},
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  number = {5},
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  issn = {1942-4795},
  doi = {10.1002/widm.1318},
  copyright = {{\copyright} 2019 Wiley Periodicals, Inc.},
  langid = {english}
}

@article{olsonPMLBLargeBenchmark2017,
  title = {{{PMLB}}: A Large Benchmark Suite for Machine Learning Evaluation and Comparison},
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}

@article{pereiraOptimalSelectionBenchmarking2024,
  title = {Optimal Selection of Benchmarking Datasets for Unbiased Machine Learning Algorithm Evaluation},
  author = {Pereira, Jo{\~a}o Luiz Junho and {Smith-Miles}, Kate and Mu{\~n}oz, Mario Andr{\'e}s and Lorena, Ana Carolina},
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  langid = {english}
}

@article{liuBayesianInferenceHighDimensional2021,
  title = {Bayesian {{Inference}} in {{High-Dimensional Linear Models Using}} an {{Empirical Correlation-Adaptive Prior}}},
  author = {Liu, Chang and Yang, Yue and Bondell, Howard and Martin, Ryan},
  year = {2021},
  journal = {Statistica Sinica},
  volume = {31},
  number = {4},
  eprint = {27089328},
  eprinttype = {jstor},
  pages = {2051--2072},
  publisher = {Institute of Statistical Science, Academia Sinica},
  issn = {1017-0405}
}

@article{lemoineMovingNoninformativePriors2019b,
  title = {Moving beyond Noninformative Priors: Why and How to Choose Weakly Informative Priors in {{Bayesian}} Analyses},
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  year = {2019},
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  volume = {128},
  number = {7},
  pages = {912--928},
  issn = {1600-0706},
  doi = {10.1111/oik.05985},
  copyright = {{\copyright} 2019 The Authors},
  langid = {english}
}

@article{smidDangersDefaultsTutorial2020,
  title = {Dangers of the {{Defaults}}: {{A Tutorial}} on the {{Impact}} of {{Default Priors When Using Bayesian SEM With Small Samples}}},
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  langid = {english}
}

@article{pepiSpatialHabitatHeterogeneity2023,
  title = {Spatial Habitat Heterogeneity Influences Host--Pathogen Dynamics in a Patchy Population of {{Ranchman}}'s Tiger Moth},
  author = {Pepi, Adam and Pan, Vincent and {Grof-Tisza}, Patrick and Holyoak, Marcel and Ballman, Alexis and {Laws-McNeil}, Aiyanna and Mase, Vinay and Moseley, Cameron and Karban, Richard},
  year = {2023},
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  copyright = {{\copyright} 2023 The Authors. Ecology published by Wiley Periodicals LLC on behalf of The Ecological Society of America.},
  langid = {english}
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@article{cochraneMultipleTimescalesLearning2023,
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  copyright = {2023 The Author(s)},
  langid = {english}
}

@article{hofmansEffectsAverageReward2022,
  title = {Effects of Average Reward Rate on Vigor as a Function of Individual Variation in Striatal Dopamine},
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  langid = {english}
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@article{tichelaarImpulseControlDisorder2023,
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  doi = {10.1093/brain/awad162}
}

@article{grilliBayesianEstimationIntegrated2015,
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@article{dawkinsWhereCleanAir2021,
  title = {Where {{Is}} the {{Clean Air}}? {{A Bayesian Decision Framework}} for {{Personalised Cyclist Route Selection Using R-INLA}}},
  shorttitle = {Where {{Is}} the {{Clean Air}}?},
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@article{paradinasModellingSpatiallySampled2018,
  title = {Modelling {{Spatially Sampled Proportion Processes}}},
  author = {Paradinas, Iosu and Pennino, Maria Grazia and {L{\'o}pez-Qu{\'i}lez}, Antonio and Mar{\'i}n, Marcial and Bellido, Jos{\'e} Mar{\'i}a and Conesa, David},
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  copyright = {Copyright (c) 2018 REVSTAT-Statistical Journal},
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}

@article{mowinckelIncreasedDefaultmodeVariability2017,
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@misc{NotesBayesianCumulative,
  title = {Notes on the {{Bayesian}} Cumulative Probit},
  journal = {A. Solomon Kurz},
  howpublished = {https://solomonkurz.netlify.app/blog/2021-12-29-notes-on-the-bayesian-cumulative-probit/},
  langid = {english}
}