References.bib

@Book{spatstat,
    title = {Spatial Point Patterns: Methodology and Applications with
      {R}},
    author = {Adrian Baddeley and Ege Rubak and Rolf Turner},
    year = {2015},
    publisher = {Chapman and Hall/CRC Press},
    address = {London},
    isbn = {9781482210200},
    url =
      {https://www.routledge.com/Spatial-Point-Patterns-Methodology-and-Applications-with-R/Baddeley-Rubak-Turner/p/book/9781482210200/},
  }

@Manual{tidybayes,
  title = {{tidybayes}: Tidy Data and Geoms for {Bayesian} Models},
  author = {Matthew Kay},
  year = {2023},
  note = {R package version 3.0.6},
  url = {http://mjskay.github.io/tidybayes/},
  doi = {10.5281/zenodo.1308151},
}

@article{bayestestR,
	title = {bayestestR: Describing Effects and their Uncertainty, Existence and Significance within the Bayesian Framework.},
	author = {Makowski, Dominique and Ben-Shachar, Mattan S. and {Lüdecke}, Daniel},
	year = {2019},
	date = {2019},
	pages = {1541},
	volume = {4},
	doi = {10.21105/joss.01541},
	url = {https://joss.theoj.org/papers/10.21105/joss.01541}
}

@book{ahsanullah2014,
	title = {Normal and Student´s t Distributions and Their Applications},
	author = {Ahsanullah, Mohammad and Kibria, B.M. Golam and Shakil, Mohammad},
	year = {2014},
	date = {2014},
	publisher = {Atlantis Press},
	doi = {10.2991/978-94-6239-061-4},
	url = {http://dx.doi.org/10.2991/978-94-6239-061-4}
}

@article{brms,
	title = {{\textbraceleft}brms{\textbraceright}: An {\textbraceleft}R{\textbraceright} Package for {\textbraceleft}Bayesian{\textbraceright} Multilevel Models Using {\textbraceleft}Stan{\textbraceright}},
	author = {{Bürkner}, Paul-Christian},
	year = {2017},
	date = {2017},
	volume = {80},
	doi = {10.18637/jss.v080.i01}
}

@article{yang2019,
	title = {Homoscedasticity: an overlooked critical assumption for linear regression},
	author = {Yang, Kun and Tu, Justin and Chen, Tian},
	year = {2019},
	month = {10},
	date = {2019-10},
	journal = {General Psychiatry},
	pages = {e100148},
	volume = {32},
	number = {5},
	doi = {10.1136/gpsych-2019-100148},
	url = {http://dx.doi.org/10.1136/gpsych-2019-100148},
	langid = {en}
}

@misc{heiss2021,
	title = {A guide to modeling proportions with Bayesian beta and zero-inflated beta regression models},
	author = {Heiss, Andrew},
	year = {2021},
	month = {11},
	date = {2021-11-08},
	url = {http://dx.doi.org/10.59350/7p1a4-0tw75}
}

@article{performance,
	title = {{\textbraceleft}performance{\textbraceright}: An {\textbraceleft}R{\textbraceright} Package for Assessment, Comparison and Testing of Statistical Models},
	author = {{Lüdecke}, Daniel and Ben-Shachar, Mattan S. and Patil, Indrajeet and Waggoner, Philip and Makowski, Dominique},
	year = {2021},
	date = {2021},
	pages = {3139},
	volume = {6},
	doi = {10.21105/joss.03139}
}

@article{makowski2019,
	title = {bayestestR: Describing Effects and their Uncertainty, Existence and Significance within the Bayesian Framework},
	author = {Makowski, Dominique and Ben-Shachar, Mattan and {Lüdecke}, Daniel},
	year = {2019},
	month = {08},
	date = {2019-08-13},
	journal = {Journal of Open Source Software},
	pages = {1541},
	volume = {4},
	number = {40},
	doi = {10.21105/joss.01541},
	url = {http://dx.doi.org/10.21105/joss.01541}
}

@article{gelman2013,
	title = {Understanding predictive information criteria for Bayesian models},
	author = {Gelman, Andrew and Hwang, Jessica and Vehtari, Aki},
	year = {2013},
	month = {08},
	date = {2013-08-20},
	journal = {Statistics and Computing},
	pages = {997--1016},
	volume = {24},
	number = {6},
	doi = {10.1007/s11222-013-9416-2},
	url = {http://dx.doi.org/10.1007/s11222-013-9416-2},
	langid = {en}
}

@article{bieber2019,
	title = {Validity and Reliability of Neurological Scores in Mice Exposed to Middle Cerebral Artery Occlusion},
	author = {Bieber, Michael and Gronewold, Janine and Scharf, Anne-Carina and Schuhmann, Michael K. and Langhauser, Friederike and Hopp, Sarah and Mencl, Stine and Geuss, Eva and Leinweber, Jonas and Guthmann, Josua and Doeppner, Thorsten R. and Kleinschnitz, Christoph and Stoll, Guido and Kraft, Peter and Hermann, Dirk M.},
	year = {2019},
	month = {10},
	date = {2019-10},
	journal = {Stroke},
	pages = {2875--2882},
	volume = {50},
	number = {10},
	doi = {10.1161/strokeaha.119.026652},
	url = {http://dx.doi.org/10.1161/STROKEAHA.119.026652},
	langid = {en}
}

@article{gigerenzer2004,
	title = {Mindless statistics},
	author = {Gigerenzer, Gerd},
	year = {2004},
	month = {11},
	date = {2004-11},
	journal = {The Journal of Socio-Economics},
	pages = {587--606},
	volume = {33},
	number = {5},
	doi = {10.1016/j.socec.2004.09.033},
	url = {http://dx.doi.org/10.1016/j.socec.2004.09.033},
	langid = {en}
}

@article{brms-2,
	title = {{\textbraceleft}brms{\textbraceright}: An {\textbraceleft}R{\textbraceright} Package for {\textbraceleft}Bayesian{\textbraceright} Multilevel Models Using {\textbraceleft}Stan{\textbraceright}},
	author = {{Bürkner}, Paul-Christian},
	year = {2017},
	date = {2017},
	volume = {80},
	doi = {10.18637/jss.v080.i01}
}

@article{tidyverse,
	title = {Welcome to the {\textbraceleft}tidyverse{\textbraceright}},
	author = {Wickham, Hadley and Averick, Mara and Bryan, Jennifer and Chang, Winston and McGowan, {Lucy D'Agostino} and {François}, Romain and Grolemund, Garrett and Hayes, Alex and Henry, Lionel and Hester, Jim and Kuhn, Max and Pedersen, Thomas Lin and Miller, Evan and Bache, Stephan Milton and {Müller}, Kirill and Ooms, Jeroen and Robinson, David and Seidel, Dana Paige and Spinu, Vitalie and Takahashi, Kohske and Vaughan, Davis and Wilke, Claus and Woo, Kara and Yutani, Hiroaki},
	year = {2019},
	date = {2019},
	pages = {1686},
	volume = {4},
	doi = {10.21105/joss.01686}
}

@article{onufriev2021,
	title = {A Comparative Study of Koizumi and Longa Methods of Intraluminal Filament Middle Cerebral Artery Occlusion in Rats: Early Corticosterone and Inflammatory Response in the Hippocampus and Frontal Cortex},
	author = {Onufriev, Mikhail V. and Moiseeva, Yulia V. and Zhanina, Marina Y. and Lazareva, Natalia A. and Gulyaeva, Natalia V.},
	year = {2021},
	month = {12},
	date = {2021-12-17},
	journal = {International Journal of Molecular Sciences},
	pages = {13544},
	volume = {22},
	number = {24},
	doi = {10.3390/ijms222413544},
	url = {http://dx.doi.org/10.3390/ijms222413544},
	langid = {en}
}

@article{liu2022,
	title = {Effect of Celastrol on LncRNAs and mRNAs Profiles of Cerebral Ischemia-Reperfusion Injury in Transient Middle Cerebral Artery Occlusion Mice Model},
	author = {Liu, Jiandong and Guo, Xiangna and Yang, Lu and Tao, Tao and Cao, Jun and Hong, Zexuan and Zeng, Fanning and Lu, Yitian and Lin, Chunshui and Qin, Zaisheng},
	year = {2022},
	month = {05},
	date = {2022-05-23},
	journal = {Frontiers in Neuroscience},
	volume = {16},
	doi = {10.3389/fnins.2022.889292},
	url = {http://dx.doi.org/10.3389/fnins.2022.889292}
}

@article{bürkner2019,
	title = {Ordinal Regression Models in Psychology: A Tutorial},
	author = {{Bürkner}, Paul-Christian and Vuorre, Matti},
	year = {2019},
	month = {02},
	date = {2019-02-25},
	journal = {Advances in Methods and Practices in Psychological Science},
	pages = {77--101},
	volume = {2},
	number = {1},
	doi = {10.1177/2515245918823199},
	url = {http://dx.doi.org/10.1177/2515245918823199},
	langid = {en}
}

@article{emmeans,
	title = {emmeans: Estimated Marginal Means, aka Least-Squares Means},
	author = {Lenth, Russell V.},
	year = {2023},
	date = {2023},
	url = {https://CRAN.R-project.org/package=emmeans}
}

@book{mcelreath2020k,
	title = {Statistical Rethinking},
	author = {McElreath, Richard},
	year = {2020},
	month = {03},
	date = {2020-03-13},
	publisher = {Chapman and Hall/CRC},
	doi = {10.1201/9780429029608},
	url = {http://dx.doi.org/10.1201/9780429029608}
}

@article{loo,
	title = {loo: Efficient leave-one-out cross-validation and WAIC for Bayesian models},
	author = {Vehtari, Aki and Gabry, Jonah and Magnusson, Mans and Yao, Yuling and {Bürkner}, Paul-Christian and Paananen, Topi and Gelman, Andrew},
	year = {2022},
	date = {2022},
	url = {https://mc-stan.org/loo/}
}

@article{vehtari2016,
	title = {Practical Bayesian model evaluation using leave-one-out cross-validation and WAIC},
	author = {Vehtari, Aki and Gelman, Andrew and Gabry, Jonah},
	year = {2016},
	month = {08},
	date = {2016-08-30},
	journal = {Statistics and Computing},
	pages = {1413--1432},
	volume = {27},
	number = {5},
	doi = {10.1007/s11222-016-9696-4},
	url = {http://dx.doi.org/10.1007/s11222-016-9696-4},
	langid = {en}
}

@article{baraibar2020,
	title = {Id1 and PD-1 Combined Blockade Impairs Tumor Growth and Survival of KRAS-mutant Lung Cancer by Stimulating PD-L1 Expression and Tumor Infiltrating CD8+ T Cells},
	author = {Baraibar, Iosune and Roman, Marta and {Rodríguez-Remírez}, {María} and {López}, {Inés} and Vilalta, Anna and Guruceaga, Elisabeth and Ecay, Margarita and Collantes, {María} and Lozano, Teresa and Alignani, Diego and Puyalto, Ander and Oliver, Ana and Ortiz-Espinosa, Sergio and Moreno, Haritz and Torregrosa, {María} and Rolfo, Christian and Caglevic, Christian and {García-Ros}, David and Villalba-Esparza, {María} and De Andrea, Carlos and Vicent, Silvestre and {Pío}, {Rubén} and Lasarte, {Juan José} and Calvo, Alfonso and Ajona, Daniel and Gil-Bazo, Ignacio},
	year = {2020},
	month = {10},
	date = {2020-10-28},
	journal = {Cancers},
	pages = {3169},
	volume = {12},
	number = {11},
	doi = {10.3390/cancers12113169},
	url = {http://dx.doi.org/10.3390/cancers12113169},
	langid = {en}
}

@article{feng2021a,
	title = {A comparison of zero-inflated and hurdle models for modeling zero-inflated count data},
	author = {Feng, Cindy Xin},
	year = {2021},
	month = {06},
	date = {2021-06-24},
	journal = {Journal of Statistical Distributions and Applications},
	volume = {8},
	number = {1},
	doi = {10.1186/s40488-021-00121-4},
	url = {http://dx.doi.org/10.1186/s40488-021-00121-4},
	langid = {en}
}

@article{manrique-castano2024,
	title = {Unbiased quantification of the spatial distribution of murine cells using point pattern analysis},
	author = {Manrique-Castano, Daniel and ElAli, Ayman},
	year = {2024},
	month = {06},
	date = {2024-06},
	journal = {STAR Protocols},
	pages = {102989},
	volume = {5},
	number = {2},
	doi = {10.1016/j.xpro.2024.102989},
	url = {http://dx.doi.org/10.1016/j.xpro.2024.102989},
	langid = {en}
}

@misc{manrique-castano2023,
	title = {Dissecting glial scar formation by spatial point pattern and topological data analysis},
	author = {Manrique-Castano, Daniel and Bhaskar, Dhananjay and ElAli, Ayman},
	year = {2023},
	month = {10},
	date = {2023-10-06},
	url = {http://dx.doi.org/10.1101/2023.10.04.560910}
}

@article{bankhead2017,
	title = {QuPath: Open source software for digital pathology image analysis},
	author = {Bankhead, Peter and Loughrey, Maurice B. and {Fernández}, {José A.} and Dombrowski, Yvonne and McArt, Darragh G. and Dunne, Philip D. and McQuaid, Stephen and Gray, Ronan T. and Murray, Liam J. and Coleman, Helen G. and James, Jacqueline A. and Salto-Tellez, Manuel and Hamilton, Peter W.},
	year = {2017},
	month = {12},
	date = {2017-12-04},
	journal = {Scientific Reports},
	volume = {7},
	number = {1},
	doi = {10.1038/s41598-017-17204-5},
	url = {http://dx.doi.org/10.1038/s41598-017-17204-5},
	langid = {en}
}

@article{stirling2021,
	title = {CellProfiler 4: improvements in speed, utility and usability},
	author = {Stirling, David R. and Swain-Bowden, Madison J. and Lucas, Alice M. and Carpenter, Anne E. and Cimini, Beth A. and Goodman, Allen},
	year = {2021},
	month = {09},
	date = {2021-09-10},
	journal = {BMC Bioinformatics},
	volume = {22},
	number = {1},
	doi = {10.1186/s12859-021-04344-9},
	url = {http://dx.doi.org/10.1186/s12859-021-04344-9},
	langid = {en}
}