Stan : A Probabilistic Programming Language

Carpenter, Bob, Gelman, Andrew, Hoffman, Matthew D., Lee, Daniel, Goodrich, Ben, Betancourt, Michael, Brubaker, Marcus, Guo, Jiqiang +2 more·2017·Journal of Statistical Software

Cited by (1,020)

Items 301–400 of 1,020

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    Silvère Vialet‐Chabrand, Tracy Lawson · 2019 · Journal of Experimental Botany
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    Damián Ezequiel Blasi, Antonios Anastasopoulos, Graham Neubig · 2022 · Proceedings of the conference - Association for Computational Linguistics. Meeting
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    Levi John Wolf, Taylor M. Oshan, Alexander Stewart Fotheringham · 2017 · Geographical Analysis
  4. The Value of Empirical Data for Estimating the Parameters of a Sociohydrological Flood Risk Model
    Marlies H. Barendrecht, Alberto Viglione, Heidi Kreibich, Bruno Merz, Sergiy Vorogushyn, Günter Blöschl · 2019 · Water Resources Research
  5. General Bayesian updating and the loss-likelihood bootstrap
    Simon Lyddon, Chris C. Holmes, Stephen Graham Walker · 2019 · Biometrika
  6. Human endogenous retroviruses form a reservoir of T cell targets in hematological cancers
    Sunil Kumar Saini, Andreas Due Ørskov, Anne-Mette Bjerregaard, Ashwin Unnikrishnan, Staffan Holmberg-Thydén, Annie Borch, Kathrine Valentini Jensen, Govardhan Anande, Amalie Kai Bentzen, Andrea Marion Marquard et al. · 2020 · Nature Communications
  7. brms: Bayesian Regression Models using 'Stan'
    Paul‐Christian Bürkner · 2015
  8. Roads to ruin: conservation threats to a sentinel species across an urban gradient
    Blake E. Feist, Eric R. Buhle, David H. Baldwin, Julann A. Spromberg, Steven E. Damm, Jay W. Davis, Nathaniel L. Scholz · 2017 · Ecological Applications
  9. Examining driver injury severity in intersection-related crashes using cluster analysis and hierarchical Bayesian models
    Zhenning Li, Cong Chen, Yusheng Ci, Guohui Zhang, Qiong Wu, Xiaoyue Cathy Liu, Sean Qian · 2018 · Accident Analysis & Prevention
  10. Formal Specification for Deep Neural Networks
    Sanjit Arunkumar Seshia, Ankush Desai, Tommaso Dreossi, Daniel J. Fremont, Shromona Ghosh, Edward Kim, Sumukh Shivakumar, Marcell Vazquez-Chanlatte, Xiangyu Yue · 2018 · Lecture notes in computer science
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    Jason I. Griffiths, Pierre Wallet, Lance T. Pflieger, David Dean Stenehjem, Xuan Liu, Patrick A. Cosgrove, Neena A. Leggett, Jasmine A. McQuerry, Gajendra Shrestha, Maura Maria Rossetti et al. · 2020 · Proceedings of the National Academy of Sciences
  12. Quantifying the impact of COVID-19 control measures using a Bayesian model of physical distancing
    Sean C. Anderson, Andrew M. Edwards, Madi Yerlanov, Nicola Mulberry, Jessica E. Stockdale, Sarafa Adewale Iyaniwura, Rebeca Cardim Falcão, Michael Christopher Otterstatter, Michael A. Irvine, Naveed Zafar Janjua et al. · 2020 · PLoS Computational Biology
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    Krisztina Ötvös, Marco Marconi, Andrea Vega, José Antonio O’Brien, Alexander Johnson, Rashed Abualia, Livio Antonielli, Juan Carlos Montesinos, Yuzhou Zhang, Shutang Tan et al. · 2021 · The EMBO Journal
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    Nina Rouhani, Yael Niv · 2021 · eLife
  15. Rat eradication restores nutrient subsidies from seabirds across terrestrial and marine ecosystems
    Cassandra E. Benkwitt, Rachel L. Gunn, Matthieu Le Corre, Peter Carr, Nicholas A. J. Graham · 2021 · Current Biology
  16. Sociogeographic correlates of typological variation in northwestern Bantu gender systems
    Annemarie Verkerk, Francesca Di Garbo · 2022 · Language Dynamics and Change
  17. Bayesian statistics and modelling
    Rens van de Schoot, Sarah A. Depaoli, Andrew Gelman, Ruth King, Bianca M. R. Kramer, Kaspar Märtens, Mahlet G. Tadesse, Marina Vannucci, Joukje E. Willemsen, Christopher Yau · 2021 · Nature Reviews Methods Primers
  18. Migratory strategy drives species-level variation in bird sensitivity to vegetation green-up
    Casey Youngflesh, Jacob B. Socolar, Bruna Do AMARAL, Ali Arab, Robert Guralnick, Allen H. Hurlbert, Raphael LaFrance, Stephen J. Mayor, David A W Miller, Morgan W. Tingley · 2021 · Nature Ecology & Evolution
  19. Seventy years of tunas, billfishes, and sharks as sentinels of global ocean health
    Maria José Juan‐Jordá, Hilário Murua, Haritz Arrizabalaga, Gorka Merino, Nathan Pacoureau, Nicholas K. Dulvy · 2022 · Science
  20. Perils and pitfalls of mixed-effects regression models in biology
    Matthew J. Silk, Xavier A. Harrison, David James Hodgson · 2020 · PeerJ
  21. Reconstructing parton distribution functions from Ioffe time data: from Bayesian methods to Neural Networks
    Joseph Karpie, Kostas Orginos, Alexander Rothkopf · 2019 · OSTI OAI (U.S. Department of Energy Office of Scientific and Technical Information)
  22. Environmental DNA provides quantitative estimates of a threatened salmon species
    Andrew Olaf Shelton, Ryan P. Kelly, James L. O’Donnell · 2019 · Biological Conservation
  23. Anosognosia for hemiplegia as a tripartite disconnection syndrome
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  24. Trends in NBA and Euroleague basketball: Analysis and comparison of statistical data from 2000 to 2017
    Radivoj Mandić, Saša Jakovljević, Frane Erčulj · 2019 · PLoS ONE
  25. Recovering Within-Person Dynamics from Psychological Time Series
    Jonas M B Haslbeck, Oisín Ryan · 2021 · Multivariate Behavioral Research
  26. sigfit: flexible Bayesian inference of mutational signatures
    Kevin C. Gori, Adrian Baez‐Ortega · 2018 · bioRxiv (Cold Spring Harbor Laboratory)
  27. Ways of applying artificial intelligence in software engineering
    ROBERT H. FELDT, Francisco Gomes de Oliveira Neto, Richard Torkar · 2018 · International Workshop on Realizing Artificial Intelligence Synergies in Software Engineering (RAISE)
  28. The hydrologist’s guide to Bayesian model selection, averaging and combination
    Marvin Höge, Anneli Guthke, Wolfgang Nowak · 2019 · Journal of Hydrology
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  30. How pupil responses track value-based decision-making during and after reinforcement learning
    Joanne C. Van Slooten, Sara Jahfari, Tomas H. J. Knapen, Jan Theeuwes · 2018 · PLoS Computational Biology
  31. Latent variable modeling for the microbiome
    Kris Sankaran, Susan Holmes · 2018 · Biostatistics
  32. Psychometric properties of neural responses to monetary and social rewards across development
    Paige Ethridge, Anna Weinberg · 2018 · International Journal of Psychophysiology
  33. Sex-specific genetic effects across biomarkers
    Emily Flynn, Yosuke Tanigawa, Fátima Rodríguez, Russ Biagio Altman, Nasa Sinnott-Armstrong, Manuel A. Rivas · 2020 · European Journal of Human Genetics
  34. Reconciling the Size‐Dependence of Marine Particle Sinking Speed
    B. B. Cael, Emma L. Cavan, Gregory L. Britten · 2021 · Geophysical Research Letters
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    Alexander P. Ji, Sergey E. Koposov, Ting S. Li, Denis Erkal, Andrew B. Pace, Joshua D. Simon, Vasily A Belokurov, Lara R. Cullinane, G. S. Da Costa, Kyler W. Kuehn et al. · 2021 · The Astrophysical Journal
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    Shane A. Blowes, Gergana N. Daskalova, María Dornelas, Thore Engel, Nicholas J. Gotelli, Anne E. Magurran, Inês Santos Martins, Brian J. McGill, Daniel J. McGlinn, Alban Sagouis et al. · 2022 · Ecology
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    Daisy Crawley, Lei Zhang, Emily J. H. Jones, Jumana Ahmad, Bethany F. M. Oakley, Antonia San José Cáceres, Tony Charman, Jan K. Buitelaar, Declan Murphy, Christopher Hughes Chatham et al. · 2020 · PLoS Biology
  38. Cross-scale interaction of host tree size and climatic water deficit governs bark beetle-induced tree mortality
    Michael J. Koontz, Andrew M. Latimer, Leif A. Mortenson, Christopher J. Fettig, Malcolm P. North · 2021 · Nature Communications
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    Urszula Łapińska, Margaritis Voliotis, Ka Kiu Lee, Adrian Campey, M. Rhia L. Stone, Brandon Tuck, Wanida Phetsang, Bing Zhang, Krasimira T. Tsaneva-Atanasova, Mark A. T. Blaskovich et al. · 2022 · eLife
  40. Dealing with Separation in Logistic Regression Models
    Carlisle Rainey · 2016 · Political Analysis
  41. When Are LIGO/Virgo’s Big Black Hole Mergers?
    Maya Fishbach, Zoheyr Doctor, Thomas Callister, Bruce Edelman, Jiani Ye, R. C. Essick, Will M. Farr, Ben Farr, DANIEL E. HOLZ · 2021 · The Astrophysical Journal
  42. Key drivers of ecosystem recovery after disturbance in a neotropical forest
    Bruno Hérault, Camille Piponiot · 2018 · Forest Ecosystems
  43. No-U-turn sampling for fast Bayesian inference in ADMB and TMB: Introducing the adnuts and tmbstan R packages
    Cole C. Monnahan, Kasper Kristensen · 2018 · PLoS ONE
  44. Picky Partners: The Pairing of Component Masses in Binary Black Hole Mergers
    Maya Fishbach, DANIEL E. HOLZ · 2020 · The Astrophysical Journal Letters
  45. Computational Models of Retrieval Processes in Sentence Processing
    Shravan Vasishth, Bruno Nicenboim, Felix Engelmann, Frank Burchert · 2019 · Trends in Cognitive Sciences
  46. Long‐term forest monitoring reveals constant mortality rise in European forests
    Jan‐Peter George, Paul‐Christian Bürkner, Tanja Sanders, Mathias Neumann, Carmelo Cammalleri, J. Vogt, Mait Lang · 2022 · Plant Biology
  47. A mobile EEG study on the psychophysiological effects of walking and crowding in indoor and outdoor urban environments
    Panagiotis Mavros, Michel J. Wälti, Mohsen Nazemi, Crystal Huiyi Ong, Christoph Hölscher · 2022 · Scientific Reports
  48. Using the Stan Program for Bayesian Item Response Theory
    Yong Luo, Hong Jiao · 2017 · Educational and Psychological Measurement
  49. Quantifying bias of COVID-19 prevalence and severity estimates in Wuhan, China that depend on reported cases in international travelers
    René Niehus, Pablo M. De Salazar, Aimee R. Taylor, Marc Lipsitch · 2020 · medRxiv
  50. Can timber provision from Amazonian production forests be sustainable?
    Camille Piponiot, Edna Rödig, Francis Edward Putz, Ervan Rutishauser, Plinio L. J. Sist, Nataly L. Ascarrunz, Lilian Blanc, Géraldine Derroire, Laurent Descroix, Marcelino Carneiro Guedes et al. · 2019 · Environmental Research Letters
  51. Probabilistic reanalysis of storm surge extremes in Europe
    Francisco Mir Calafat, Marta Marcos · 2020 · Proceedings of the National Academy of Sciences
  52. Energetics and fear of humans constrain the spatial ecology of pumas
    Barry A. Nickel, Justin P. Suraci, Anna C. Nisi · 2021 · Proceedings of the National Academy of Sciences
  53. Age patterns of HIV incidence in eastern and southern Africa: a modelling analysis of observational population-based cohort studies
    Kathryn Risher, Anne Cori, Georges Reniers et al. · 2021 · The Lancet HIV
  54. Data-centric Engineering: integrating simulation, machine learning and statistics. Challenges and opportunities
    Indranil Pan, Lachlan R. Mason, Omar K. Matar · 2021 · Chemical Engineering Science
  55. Reaction times can reflect habits rather than computations
    Wong, Aaron L, Goldsmith, Jeff, Forrence, Alexander D, Haith, Adrian M, Krakauer, John W · 2017 · eLife
  56. Geometric integrators and the Hamiltonian Monte Carlo method
    Nawaf M. Bou-Rabee, Jesús María Sanz-Serna · 2018 · Acta Numerica
  57. Proposing behavior-oriented strategies for earthquake emergency evacuation: A behavioral data analysis from New Zealand, Italy and Japan
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  58. Bayesian regression modeling (for factorial designs): A tutorial
    Michael Franke, Timo Benjamin Roettger · 2019
  59. joineRML: a joint model and software package for time-to-event and multivariate longitudinal outcomes
    Graeme L. Hickey, Pete Philipson, Andrea Jorgensen · 2018 · BMC Medical Research Methodology
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  61. Assessing the performance of population adjustment methods for anchored indirect comparisons: A simulation study
    David Phillippo, Sofia Dias, Anthony E. Ades, Nicky J. Welton · 2020 · Statistics in Medicine
  62. Predicting Early-Childhood Gender Transitions
    James Richard Rae, Selin Gülgöz, Lily Durwood, Madeleine DeMeules, R. Sandlin Lowe, Gabrielle Lindquist, Kristina R. Olson · 2019 · Psychological Science
  63. An engineered human Fc domain that behaves like a pH-toggle switch for ultra-long circulation persistence
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  64. Towards robust autonomous impedance spectroscopy analysis: A calibrated hierarchical Bayesian approach for electrochemical impedance spectroscopy (EIS) inversion
    Jake Huang, Meagan C. Papac, Ryan O’Hayre · 2020 · Electrochimica Acta
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    Do, Tuan, Hees, Aurelien, Ghez, Andrea, Gregory David Martinez, Chu, Devin S, Jia, Siyao, Sakai, Shoko, Lu, Jessica R, Gautam, Abhimat K, O'Neil, Kelly Kosmo et al. · 2019 · eScholarship (California Digital Library)
  66. Nonlinear Mixed‐Effects Model Development and Simulation Using nlmixr and Related R Open‐Source Packages
    Matthew L. Fidler, Justin J. Wilkins, Richard Hooijmaijers, Teun M. Post, Rik C. Schoemaker, Mirjam Nadine Trame, Yuan Xiong, Wenping Wang · 2019 · CPT Pharmacometrics & Systems Pharmacology
  67. Enhancing scientific discoveries in molecular biology with deep generative models
    Lopez, Romain, Gayoso, Adam, Yosef, Nir · 2020 · Molecular Systems Biology
  68. Scaling exact inference for discrete probabilistic programs
    Steven Holtzen, Guy Van den Broeck, Todd D. Millstein · 2020 · Proceedings of the ACM on Programming Languages
  69. Widespread Biases in Ecological and Evolutionary Studies
    Zachary W. Culumber, Jaime M. Anaya‐Rojas, William W. Booker, Alexandra P. Hooks, Elizabeth C. Lange, Benjamin D. Pluer, Natali Ramírez-Bullón, Joseph Travis · 2019 · BioScience
  70. Changes in climate drive recent monarch butterfly dynamics
    Erin R. Zylstra, Leslie Ries, Naresh Neupane, Sarah P. Saunders, M. Isabel Ramírez, Eduardo Rendón-Salinas, Karen S. Oberhauser, Matthew T. Farr, Elise F. Zipkin · 2021 · Nature Ecology & Evolution
  71. Identification of a Rhythmic Firing Pattern in the Enteric Nervous System That Generates Rhythmic Electrical Activity in Smooth Muscle
    Nick J. Spencer, Timothy James Hibberd, Lee Travis et al. · 2018 · Journal of Neuroscience
  72. Mixed Effects Models are Sometimes Terrible
    Christopher D. Eager, Joseph Roy · 2017 · arXiv (Cornell University)
  73. Health status after invasive or conservative care in coronary and advanced kidney disease
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  74. Metapopulation dynamics in a changing climate: Increasing spatial synchrony in weather conditions drives metapopulation synchrony of a butterfly inhabiting a fragmented landscape
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  75. Spatiotemporal prediction of wildfire size extremes with Bayesian finite sample maxima
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  76. Studying strong phase transitions in neutron stars with gravitational waves
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  78. Abiotic conditions shape spatial and temporal morphological variation in North American birds
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  82. Comparing Bayesian Models of Annotation
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  86. Bayesian Estimation of Age-Specific Mortality and Life Expectancy for Small Areas With Defective Vital Records
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  100. Hierarchical Test of General Relativity with Gravitational Waves
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