% Data sets

@article{belenky2003patterns,
  author = {Belenky, Gregory and Wesensten, Nancy J. and Thorne, David R. and 
  Thomas, Maria L. and Sing, Helen C. and Redmond, Daniel P. and 
  Russo, Michael B. and Balkin, Thomas J.},
  title = {Patterns of performance degradation and restoration during sleep 
  restriction and subsequent recovery: a sleep dose-response study},
  journal = {Journal of Sleep Research},
  volume = {12},
  number = {1},
  pages = {1-12},
  keywords = {chronic sleep restriction, modeling, partial sleep deprivation, 
  performance, recovery, sleep deprivation, sleep restriction, sleep},
  doi = {https://doi.org/10.1046/j.1365-2869.2003.00337.x},
  year = {2003}
}

@article{elston2001analysis,
  title={Analysis of aggregation, a worked example: numbers of ticks on red grouse chicks},
  author={Elston, DA and Moss, Robert and Boulinier, Thierry and Arrowsmith, 
  Claire and Lambin, Xavier},
  journal={Parasitology},
  volume={122},
  number={5},
  pages={563--569},
  year={2001},
  publisher={Cambridge University Press},
  doi={https://doi.org/10.1017/S0031182001007740}
}

@mastersthesis{cook1938chocolate,
  author = {Cook, F. E.},
  title = {Chocolate cake, I. Optimum baking temperature},
  school = {Iowa State College},
  year = {1938},
  type = {Master's Thesis}
}

@book{cochran1957experimental,
  author    = {Cochran, W. G. and Cox, G. M.},
  title     = {Experimental Designs},
  edition   = {2nd},
  year      = {1957},
  publisher = {John Wiley & Sons},
  address   = {New York}
}

@book{lee2006generalized,
  title = {Generalized linear models with random effects: unified analysis via 
  H-likelihood},
  author = {Lee, Youngjo and Nelder, John A and Pawitan, Yudi},
  year = {2006},
  publisher = {Chapman and Hall/CRC},
  address = {Boca Raton}
}

@book{de2004explanatory,
  title={Explanatory item response models: A generalized linear and nonlinear approach},
  author={De Boeck, Paul and Wilson, Mark},
  year={2004},
  publisher={Springer}
}

@book{davies1972statistical,
  editor    = {Davies, O. L. and Goldsmith, P. L.},
  title     = {Statistical Methods in Research and Production},
  edition   = {4th},
  year      = {1972},
  publisher = {Oliver and Boyd},
  note      = {Section 6.6}
}

@book{davies1972statistical_pt2,
  editor    = {Davies, O. L. and Goldsmith, P. L.},
  title     = {Statistical Methods in Research and Production},
  edition   = {4th},
  year      = {1972},
  publisher = {Oliver and Boyd},
  note      = {Section 6.5}
}

@book{davies1972statistical_pt3,
  editor    = {Davies, O. L. and Goldsmith, P. L.},
  title     = {Statistical Methods in Research and Production},
  edition   = {4th},
  year      = {1972},
  publisher = {Oliver and Boyd},
  note      = {Section 6.4}
}

@book{box1973bayesian,
  author    = {Box, G. E. P. and Tiao, G. C.},
  title     = {Bayesian Inference in Statistical Analysis},
  year      = {1973},
  publisher = {Addison-Wesley},
  note      = {Section 5.1.2}
}

@article{banta2010comprehensive,
  author = {Banta, Joshua A. and Stevens, Martin H. H. and Pigliucci, Massimo},
  title = {A comprehensive test of the 'limiting resources' framework applied to 
  plant tolerance to apical meristem damage},
  journal = {Oikos},
  volume = {119},
  number = {2},
  pages = {359-369},
  doi = {https://doi.org/10.1111/j.1600-0706.2009.17726.x},
  year = {2010}
}


@article{hedeker1996mixor,
  title={MIXOR: a computer program for mixed-effects ordinal regression analysis},
  author={Hedeker, Donald and Gibbons, Robert D},
  journal={Computer methods and programs in biomedicine},
  volume={49},
  number={2},
  pages={157--176},
  year={1996},
  publisher={Elsevier}
}

@book{hedeker2006longitudinal,
  title={Longitudinal data analysis},
  author={Hedeker, Donald and Gibbons, Robert D},
  year={2006},
  publisher={John Wiley & Sons}
}

@book{mccullagh1989generalized,
  title={Generalized linear models},
  author={McCullagh, Peter and Nelder, John Ashworth},
  year={1989},
  publisher={Routledge}
}

@article{de1998twelve,
  title = {Twelve weeks of continuous oral therapy for toenail onychomycosis 
  caused by dermatophytes: A double-blind comparative trial of terbinafine 
  250 mg/day versus itraconazole 200 mg/day},
  journal = {Journal of the American Academy of Dermatology},
  volume = {38},
  number = {5, Supplement 2},
  pages = {S57-S63},
  year = {1998},
  issn = {0190-9622},
  doi = {https://doi.org/10.1016/S0190-9622(98)70486-4},
  author = {M. {De Backer} and C. {De Vroey} and E. Lesaffre and I. Scheys and 
  P. {De Keyser}}
}

@article{lesnoff2004within,
  title = {Within-herd spread of contagious bovine pleuropneumonia in Ethiopian 
  highlands},
  journal = {Preventive Veterinary Medicine},
  volume = {64},
  number = {1},
  pages = {27-40},
  year = {2004},
  issn = {0167-5877},
  doi = {https://doi.org/10.1016/j.prevetmed.2004.03.005},
  author={Lesnoff, Matthieu and Laval, Geraud and Bonnet, Pascal and 
  Abdicho, Sintayehu and Workalemahu, Asseguid and Kifle, Daniel and 
  Peyraud, Armelle and Lancelot, Renaud and Thiaucourt, Francois}
}

@article{ozgul2009upper,
  author = {Ozgul, Arpat and Oli, Madan K. and Bolker, Benjamin M. and 
  Perez-Heydrich, Carolina},
  title = {Upper respiratory tract disease, force of infection, and effects on 
  survival of gopher tortoises},
  journal = {Ecological Applications},
  volume = {19},
  number = {3},
  pages = {786-798},
  doi = {https://doi.org/10.1890/08-0219.1},
  year = {2009}
}

@article{mckeon2012multiple,
  title={Multiple defender effects: synergistic coral defense by mutualist 
  crustaceans},
  author={McKeon, C Seabird and Stier, Adrian C and McIlroy, Shelby E and 
  Bolker, Benjamin M},
  journal={Oecologia},
  volume={169},
  number={4},
  pages={1095--1103},
  year={2012},
  publisher={Springer},
  doi={https://doi.org/10.1007/s00442-012-2275-2}
}

% Other papers

@article{liu1994note,
  title={A note on Gauss—Hermite quadrature},
  author={Liu, Qing and Pierce, Donald A},
  journal={Biometrika},
  volume={81},
  number={3},
  pages={624--629},
  year={1994},
  doi={https://doi.org/10.2307/2337136}
}

@book{davison1997bootstrap,
  title={Bootstrap methods and their application},
  author={Davison, Anthony Christopher and Hinkley, David Victor},
  year={1997},
  publisher={Cambridge University Press}
}

@article{morris2002blups,
  title = {The BLUPs are not "best" when it comes to bootstrapping},
  journal = {Statistics & Probability Letters},
  volume = {56},
  number = {4},
  pages = {425-430},
  year = {2002},
  issn = {0167-7152},
  doi = {https://doi.org/10.1016/S0167-7152(02)00041-X},
  author = {Morris, Jeffrey S},
}

@book{fox2019r,
  title = {An R companion to applied regression},
  author = {Fox, John and Weisberg, Sanford},
  year = {2019},
  edition = {3rd},
  publisher={Sage}
}

@article{barr2013random,
  title = {Random effects structure for confirmatory hypothesis testing: Keep 
  it maximal},
  journal = {Journal of Memory and Language},
  author={Barr, Dale J and Levy, Roger and Scheepers, Christoph and Tily, 
  Harry J},
  volume={68},
  number={3},
  pages={255--278},
  year={2013},
  doi = {https://doi.org/10.1016/j.jml.2012.11.001}
}

@article{bates2015parsimonious,
  title={Parsimonious Mixed Models},
  author={Bates, Douglas and Kliegl, Reinhold and Vasishth, Shravan and 
  Baayen, Harald},
  journal={arXiv preprint},
  url = {https://arxiv.org/abs/1506.04967},
  year={2015}
}

@article{chung2013nondegenerate,
  title={A nondegenerate penalized likelihood estimator for variance parameters 
  in multilevel models},
  author={Chung, Yeojin and Rabe-Hesketh, Sophia and Dorie, Vincent and 
  Gelman, Andrew and Liu, Jingchen},
  journal={Psychometrika},
  volume={78},
  number={4},
  pages={685--709},
  year={2013},
  publisher={Cambridge University Press},
  doi= {https://doi.org/10.1007/S11336-013-9328-2}
}

@book{gelman2007data,
  title={Data Analysis Using Regression and Multilevel/Hierarchical Models},
  author={Gelman, Andrew and Hill, Jennifer},
  year={2006},
  publisher={Cambridge University Press}
}

@article{matuschek2017balancing,
  title = {Balancing Type I error and power in linear mixed models},
  author={Matuschek, Hannes and Kliegl, Reinhold and Vasishth, Shravan and 
  Baayen, Harald and Bates, Douglas},
  journal = {Journal of Memory and Language},
  volume = {94},
  pages = {305-315},
  year = {2017},
  issn = {0749-596X},
  doi = {https://doi.org/10.1016/j.jml.2017.01.001}
}

@book{mcelreath2015statistical,
  title={Statistical Rethinking: A Bayesian Course with Examples in R and Stan},
  author={McElreath, Richard},
  year={2015},
  publisher={Chapman and Hall/CRC}
}