IDEAS home Printed from https://ideas.repec.org/a/eee/csdana/v181y2023ics0167947323000038.html
   My bibliography  Save this article

A new avenue for Bayesian inference with INLA

Author

Listed:
  • Van Niekerk, Janet
  • Krainski, Elias
  • Rustand, Denis
  • Rue, Håvard

Abstract

Integrated Nested Laplace Approximations (INLA) has been a successful approximate Bayesian inference framework since its proposal by Rue et al. (2009). The increased computational efficiency and accuracy when compared with sampling-based methods for Bayesian inference like MCMC methods, are some contributors to its success. Ongoing research in the INLA methodology and implementation thereof in the R package R-INLA, ensures continued relevance for practitioners and improved performance and applicability of INLA. The era of big data and some recent research developments, presents an opportunity to reformulate some aspects of the classic INLA formulation, to achieve even faster inference, improved numerical stability and scalability. The improvement is especially noticeable for data-rich models.

Suggested Citation

  • Van Niekerk, Janet & Krainski, Elias & Rustand, Denis & Rue, Håvard, 2023. "A new avenue for Bayesian inference with INLA," Computational Statistics & Data Analysis, Elsevier, vol. 181(C).
  • Handle: RePEc:eee:csdana:v:181:y:2023:i:c:s0167947323000038
    DOI: 10.1016/j.csda.2023.107692
    as

    Download full text from publisher

    File URL: http://www.sciencedirect.com/science/article/pii/S0167947323000038
    Download Restriction: Full text for ScienceDirect subscribers only.

    File URL: https://libkey.io/10.1016/j.csda.2023.107692?utm_source=ideas
    LibKey link: if access is restricted and if your library uses this service, LibKey will redirect you to where you can use your library subscription to access this item
    ---><---

    As the access to this document is restricted, you may want to search for a different version of it.

    References listed on IDEAS

    as
    1. Amanda F. Mejia & Yu (Ryan) Yue & David Bolin & Finn Lindgren & Martin A. Lindquist, 2020. "A Bayesian General Linear Modeling Approach to Cortical Surface fMRI Data Analysis," Journal of the American Statistical Association, Taylor & Francis Journals, vol. 115(530), pages 501-520, April.
    2. Sara Martino & Rupali Akerkar & Håvard Rue, 2011. "Approximate Bayesian Inference for Survival Models," Scandinavian Journal of Statistics, Danish Society for Theoretical Statistics;Finnish Statistical Society;Norwegian Statistical Association;Swedish Statistical Association, vol. 38(3), pages 514-528, September.
    3. Shreosi Sanyal & Thierry Rochereau & Cara Nichole Maesano & Laure Com-Ruelle & Isabella Annesi-Maesano, 2018. "Long-Term Effect of Outdoor Air Pollution on Mortality and Morbidity: A 12-Year Follow-Up Study for Metropolitan France," IJERPH, MDPI, vol. 15(11), pages 1-8, November.
    4. Laura Dwyer-Lindgren & Michael A. Cork & Amber Sligar & Krista M. Steuben & Kate F. Wilson & Naomi R. Provost & Benjamin K. Mayala & John D. VanderHeide & Michael L. Collison & Jason B. Hall & Molly H, 2019. "Mapping HIV prevalence in sub-Saharan Africa between 2000 and 2017," Nature, Nature, vol. 570(7760), pages 189-193, June.
    5. Coll, M. & Pennino, M. Grazia & Steenbeek, J. & Sole, J. & Bellido, J.M., 2019. "Predicting marine species distributions: Complementarity of food-web and Bayesian hierarchical modelling approaches," Ecological Modelling, Elsevier, vol. 405(C), pages 86-101.
    6. Håvard Rue & Sara Martino & Nicolas Chopin, 2009. "Approximate Bayesian inference for latent Gaussian models by using integrated nested Laplace approximations," Journal of the Royal Statistical Society Series B, Royal Statistical Society, vol. 71(2), pages 319-392, April.
    7. William Marciel Souza & Lewis Fletcher Buss & Darlan da Silva Candido & Jean-Paul Carrera & Sabrina Li & Alexander E. Zarebski & Rafael Henrique Moraes Pereira & Carlos A. Prete & Andreza Aruska Souza, 2020. "Epidemiological and clinical characteristics of the COVID-19 epidemic in Brazil," Nature Human Behaviour, Nature, vol. 4(8), pages 856-865, August.
    8. Martin, Andrew D. & Quinn, Kevin M. & Park, Jong Hee, 2011. "MCMCpack: Markov Chain Monte Carlo in R," Journal of Statistical Software, Foundation for Open Access Statistics, vol. 42(i09).
    9. Bethan Davies & Brandon L. Parkes & James Bennett & Daniela Fecht & Marta Blangiardo & Majid Ezzati & Paul Elliott, 2021. "Community factors and excess mortality in first wave of the COVID-19 pandemic in England," Nature Communications, Nature, vol. 12(1), pages 1-9, December.
    10. Finn Lindgren & Håvard Rue, 2008. "On the Second‐Order Random Walk Model for Irregular Locations," Scandinavian Journal of Statistics, Danish Society for Theoretical Statistics;Finnish Statistical Society;Norwegian Statistical Association;Swedish Statistical Association, vol. 35(4), pages 691-700, December.
    11. Sara Martino & Kjersti Aas & Ola Lindqvist & Linda Neef & Håvard Rue, 2011. "Estimating stochastic volatility models using integrated nested Laplace approximations," The European Journal of Finance, Taylor & Francis Journals, vol. 17(7), pages 487-503.
    12. Finn Lindgren & Håvard Rue & Johan Lindström, 2011. "An explicit link between Gaussian fields and Gaussian Markov random fields: the stochastic partial differential equation approach," Journal of the Royal Statistical Society Series B, Royal Statistical Society, vol. 73(4), pages 423-498, September.
    Full references (including those not matched with items on IDEAS)

    Citations

    Citations are extracted by the CitEc Project, subscribe to its RSS feed for this item.
    as


    Cited by:

    1. João Pedro Coli de Souza Monteneri Nacinben & Márcio Laurini, 2024. "Multivariate Stochastic Volatility Modeling via Integrated Nested Laplace Approximations: A Multifactor Extension," Econometrics, MDPI, vol. 12(1), pages 1-28, February.

    Most related items

    These are the items that most often cite the same works as this one and are cited by the same works as this one.
    1. Martins, Thiago G. & Simpson, Daniel & Lindgren, Finn & Rue, Håvard, 2013. "Bayesian computing with INLA: New features," Computational Statistics & Data Analysis, Elsevier, vol. 67(C), pages 68-83.
    2. Gressani, Oswaldo & Lambert, Philippe, 2016. "Fast Bayesian inference in semi-parametric P-spline cure survival models using Laplace approximations," LIDAM Discussion Papers ISBA 2016041, Université catholique de Louvain, Institute of Statistics, Biostatistics and Actuarial Sciences (ISBA).
    3. David L. Miller & Richard Glennie & Andrew E. Seaton, 2020. "Understanding the Stochastic Partial Differential Equation Approach to Smoothing," Journal of Agricultural, Biological and Environmental Statistics, Springer;The International Biometric Society;American Statistical Association, vol. 25(1), pages 1-16, March.
    4. Alex Stringer & Patrick Brown & Jamie Stafford, 2021. "Approximate Bayesian inference for case‐crossover models," Biometrics, The International Biometric Society, vol. 77(3), pages 785-795, September.
    5. Gressani, Oswaldo & Lambert, Philippe, 2018. "Fast Bayesian inference using Laplace approximations in a flexible promotion time cure model based on P-splines," Computational Statistics & Data Analysis, Elsevier, vol. 124(C), pages 151-167.
    6. Xavier Barber & David Conesa & Antonio López-Quílez & Joaquín Martínez-Minaya & Iosu Paradinas & Maria Grazia Pennino, 2021. "Incorporating Biotic Information in Species Distribution Models: A Coregionalized Approach," Mathematics, MDPI, vol. 9(4), pages 1-12, February.
    7. Brown, Paul T. & Joshi, Chaitanya & Joe, Stephen & Rue, Håvard, 2021. "A novel method of marginalisation using low discrepancy sequences for integrated nested Laplace approximations," Computational Statistics & Data Analysis, Elsevier, vol. 157(C).
    8. Yuan Yan & Eva Cantoni & Chris Field & Margaret Treble & Joanna Mills Flemming, 2023. "Spatiotemporal modeling of mature‐at‐length data using a sliding window approach," Environmetrics, John Wiley & Sons, Ltd., vol. 34(2), March.
    9. Daniel Cervone & Alex D’Amour & Luke Bornn & Kirk Goldsberry, 2016. "A Multiresolution Stochastic Process Model for Predicting Basketball Possession Outcomes," Journal of the American Statistical Association, Taylor & Francis Journals, vol. 111(514), pages 585-599, April.
    10. Jonathan Wakefield & Taylor Okonek & Jon Pedersen, 2020. "Small Area Estimation for Disease Prevalence Mapping," International Statistical Review, International Statistical Institute, vol. 88(2), pages 398-418, August.
    11. Zhang, Shen & Liu, Xin & Tang, Jinjun & Cheng, Shaowu & Qi, Yong & Wang, Yinhai, 2018. "Spatio-temporal modeling of destination choice behavior through the Bayesian hierarchical approach," Physica A: Statistical Mechanics and its Applications, Elsevier, vol. 512(C), pages 537-551.
    12. Fasil Wagnew & Kefyalew Addis Alene & Matthew Kelly & Darren Gray, 2023. "Geospatial Overlap of Undernutrition and Tuberculosis in Ethiopia," IJERPH, MDPI, vol. 20(21), pages 1-15, October.
    13. Somnath Chaudhuri & Gerard Giménez-Adsuar & Marc Saez & Maria A. Barceló, 2022. "PandemonCAT: Monitoring the COVID-19 Pandemic in Catalonia, Spain," IJERPH, MDPI, vol. 19(8), pages 1-22, April.
    14. Matthew J. Heaton & Abhirup Datta & Andrew O. Finley & Reinhard Furrer & Joseph Guinness & Rajarshi Guhaniyogi & Florian Gerber & Robert B. Gramacy & Dorit Hammerling & Matthias Katzfuss & Finn Lindgr, 2019. "A Case Study Competition Among Methods for Analyzing Large Spatial Data," Journal of Agricultural, Biological and Environmental Statistics, Springer;The International Biometric Society;American Statistical Association, vol. 24(3), pages 398-425, September.
    15. Sameh Abdulah & Yuxiao Li & Jian Cao & Hatem Ltaief & David E. Keyes & Marc G. Genton & Ying Sun, 2023. "Large‐scale environmental data science with ExaGeoStatR," Environmetrics, John Wiley & Sons, Ltd., vol. 34(1), February.
    16. John M. Humphreys & Robert B. Srygley & David H. Branson, 2022. "Geographic Variation in Migratory Grasshopper Recruitment under Projected Climate Change," Geographies, MDPI, vol. 2(1), pages 1-19, January.
    17. Francesca Della Rocca & Pietro Milanesi, 2022. "The New Dominator of the World: Modeling the Global Distribution of the Japanese Beetle under Land Use and Climate Change Scenarios," Land, MDPI, vol. 11(4), pages 1-17, April.
    18. Unn Dahlén & Johan Lindström & Marko Scholze, 2020. "Spatiotemporal reconstructions of global CO2‐fluxes using Gaussian Markov random fields," Environmetrics, John Wiley & Sons, Ltd., vol. 31(4), June.
    19. Mateo, Rubén G. & Arellano, Gabriel & Gómez-Rubio, Virgilio & Tello, J. Sebastián & Fuentes, Alfredo F. & Cayola, Leslie & Loza, M. Isabel & Cala, Victoria & Macía, Manuel J., 2022. "Insights on biodiversity drivers to predict species richness in tropical forests at the local scale," Ecological Modelling, Elsevier, vol. 473(C).
    20. Dong Liang & Genevieve Nesslage & Michael Wilberg & Thomas Miller, 2017. "Bayesian Calibration of Blue Crab (Callinectes sapidus) Abundance Indices Based on Probability Surveys," Journal of Agricultural, Biological and Environmental Statistics, Springer;The International Biometric Society;American Statistical Association, vol. 22(4), pages 481-497, December.

    Corrections

    All material on this site has been provided by the respective publishers and authors. You can help correct errors and omissions. When requesting a correction, please mention this item's handle: RePEc:eee:csdana:v:181:y:2023:i:c:s0167947323000038. See general information about how to correct material in RePEc.

    If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.

    If CitEc recognized a bibliographic reference but did not link an item in RePEc to it, you can help with this form .

    If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your RePEc Author Service profile, as there may be some citations waiting for confirmation.

    For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: Catherine Liu (email available below). General contact details of provider: http://www.elsevier.com/locate/csda .

    Please note that corrections may take a couple of weeks to filter through the various RePEc services.

    IDEAS is a RePEc service. RePEc uses bibliographic data supplied by the respective publishers.