Literature DB >> 33577550

Evaluating epidemic forecasts in an interval format.

Johannes Bracher1,2, Evan L Ray3, Tilmann Gneiting2,4, Nicholas G Reich3.   

Abstract

For practical reasons, many forecasts of case, hospitalization, and death counts in the context of the current Coronavirus Disease 2019 (COVID-19) pandemic are issued in the form of central predictive intervals at various levels. This is also the case for the forecasts collected in the COVID-19 Forecast Hub (https://covid19forecasthub.org/). Forecast evaluation metrics like the logarithmic score, which has been applied in several infectious disease forecasting challenges, are then not available as they require full predictive distributions. This article provides an overview of how established methods for the evaluation of quantile and interval forecasts can be applied to epidemic forecasts in this format. Specifically, we discuss the computation and interpretation of the weighted interval score, which is a proper score that approximates the continuous ranked probability score. It can be interpreted as a generalization of the absolute error to probabilistic forecasts and allows for a decomposition into a measure of sharpness and penalties for over- and underprediction.

Entities:  

Mesh:

Year:  2021        PMID: 33577550      PMCID: PMC7880475          DOI: 10.1371/journal.pcbi.1008618

Source DB:  PubMed          Journal:  PLoS Comput Biol        ISSN: 1553-734X            Impact factor:   4.779


  10 in total

1.  Predictive model assessment for count data.

Authors:  Claudia Czado; Tilmann Gneiting; Leonhard Held
Journal:  Biometrics       Date:  2009-12       Impact factor: 2.571

2.  On the multibin logarithmic score used in the FluSight competitions.

Authors:  Johannes Bracher
Journal:  Proc Natl Acad Sci U S A       Date:  2019-09-26       Impact factor: 11.205

3.  Probabilistic forecasting in infectious disease epidemiology: the 13th Armitage lecture.

Authors:  Leonhard Held; Sebastian Meyer; Johannes Bracher
Journal:  Stat Med       Date:  2017-06-27       Impact factor: 2.373

4.  Assessing the performance of real-time epidemic forecasts: A case study of Ebola in the Western Area region of Sierra Leone, 2014-15.

Authors:  Sebastian Funk; Anton Camacho; Adam J Kucharski; Rachel Lowe; Rosalind M Eggo; W John Edmunds
Journal:  PLoS Comput Biol       Date:  2019-02-11       Impact factor: 4.475

5.  Infectious disease prediction with kernel conditional density estimation.

Authors:  Evan L Ray; Krzysztof Sakrejda; Stephen A Lauer; Michael A Johansson; Nicholas G Reich
Journal:  Stat Med       Date:  2017-09-14       Impact factor: 2.373

6.  Collaborative efforts to forecast seasonal influenza in the United States, 2015-2016.

Authors:  Craig J McGowan; Matthew Biggerstaff; Michael Johansson; Karyn M Apfeldorf; Michal Ben-Nun; Logan Brooks; Matteo Convertino; Madhav Erraguntla; David C Farrow; John Freeze; Saurav Ghosh; Sangwon Hyun; Sasikiran Kandula; Joceline Lega; Yang Liu; Nicholas Michaud; Haruka Morita; Jarad Niemi; Naren Ramakrishnan; Evan L Ray; Nicholas G Reich; Pete Riley; Jeffrey Shaman; Ryan Tibshirani; Alessandro Vespignani; Qian Zhang; Carrie Reed
Journal:  Sci Rep       Date:  2019-01-24       Impact factor: 4.379

7.  A novel sub-epidemic modeling framework for short-term forecasting epidemic waves.

Authors:  Gerardo Chowell; Amna Tariq; James M Hyman
Journal:  BMC Med       Date:  2019-08-22       Impact factor: 8.775

8.  Reply to Bracher: Scoring probabilistic forecasts to maximize public health interpretability.

Authors:  Nicholas G Reich; Dave Osthus; Evan L Ray; Teresa K Yamana; Matthew Biggerstaff; Michael A Johansson; Roni Rosenfeld; Jeffrey Shaman
Journal:  Proc Natl Acad Sci U S A       Date:  2019-09-26       Impact factor: 11.205

9.  A collaborative multiyear, multimodel assessment of seasonal influenza forecasting in the United States.

Authors:  Nicholas G Reich; Logan C Brooks; Spencer J Fox; Sasikiran Kandula; Craig J McGowan; Evan Moore; Dave Osthus; Evan L Ray; Abhinav Tushar; Teresa K Yamana; Matthew Biggerstaff; Michael A Johansson; Roni Rosenfeld; Jeffrey Shaman
Journal:  Proc Natl Acad Sci U S A       Date:  2019-01-15       Impact factor: 11.205

10.  An open challenge to advance probabilistic forecasting for dengue epidemics.

Authors:  Michael A Johansson; Karyn M Apfeldorf; Scott Dobson; Jason Devita; Anna L Buczak; Benjamin Baugher; Linda J Moniz; Thomas Bagley; Steven M Babin; Erhan Guven; Teresa K Yamana; Jeffrey Shaman; Terry Moschou; Nick Lothian; Aaron Lane; Grant Osborne; Gao Jiang; Logan C Brooks; David C Farrow; Sangwon Hyun; Ryan J Tibshirani; Roni Rosenfeld; Justin Lessler; Nicholas G Reich; Derek A T Cummings; Stephen A Lauer; Sean M Moore; Hannah E Clapham; Rachel Lowe; Trevor C Bailey; Markel García-Díez; Marilia Sá Carvalho; Xavier Rodó; Tridip Sardar; Richard Paul; Evan L Ray; Krzysztof Sakrejda; Alexandria C Brown; Xi Meng; Osonde Osoba; Raffaele Vardavas; David Manheim; Melinda Moore; Dhananjai M Rao; Travis C Porco; Sarah Ackley; Fengchen Liu; Lee Worden; Matteo Convertino; Yang Liu; Abraham Reddy; Eloy Ortiz; Jorge Rivero; Humberto Brito; Alicia Juarrero; Leah R Johnson; Robert B Gramacy; Jeremy M Cohen; Erin A Mordecai; Courtney C Murdock; Jason R Rohr; Sadie J Ryan; Anna M Stewart-Ibarra; Daniel P Weikel; Antarpreet Jutla; Rakibul Khan; Marissa Poultney; Rita R Colwell; Brenda Rivera-García; Christopher M Barker; Jesse E Bell; Matthew Biggerstaff; David Swerdlow; Luis Mier-Y-Teran-Romero; Brett M Forshey; Juli Trtanj; Jason Asher; Matt Clay; Harold S Margolis; Andrew M Hebbeler; Dylan George; Jean-Paul Chretien
Journal:  Proc Natl Acad Sci U S A       Date:  2019-11-11       Impact factor: 11.205

  10 in total
  28 in total

1.  Comparative assessment of methods for short-term forecasts of COVID-19 hospital admissions in England at the local level.

Authors:  Sophie Meakin; Sam Abbott; Nikos Bosse; James Munday; Hugo Gruson; Joel Hellewell; Katharine Sherratt; Sebastian Funk
Journal:  BMC Med       Date:  2022-02-21       Impact factor: 8.775

2.  Adaptively stacking ensembles for influenza forecasting.

Authors:  Thomas McAndrew; Nicholas G Reich
Journal:  Stat Med       Date:  2021-10-14       Impact factor: 2.373

3.  Trend estimation and short-term forecasting of COVID-19 cases and deaths worldwide.

Authors:  Ekaterina Krymova; Benjamín Béjar; Dorina Thanou; Tao Sun; Elisa Manetti; Gavin Lee; Kristen Namigai; Christine Choirat; Antoine Flahault; Guillaume Obozinski
Journal:  Proc Natl Acad Sci U S A       Date:  2022-08-03       Impact factor: 12.779

4.  Interoperability of statistical models in pandemic preparedness: principles and reality.

Authors:  Chris Holmes; Sylvia Richardson; George Nicholson; Marta Blangiardo; Mark Briers; Peter J Diggle; Tor Erlend Fjelde; Hong Ge; Robert J B Goudie; Radka Jersakova; Ruairidh E King; Brieuc C L Lehmann; Ann-Marie Mallon; Tullia Padellini; Yee Whye Teh
Journal:  Stat Sci       Date:  2022-05       Impact factor: 4.015

5.  Comparing trained and untrained probabilistic ensemble forecasts of COVID-19 cases and deaths in the United States.

Authors:  Evan L Ray; Logan C Brooks; Jacob Bien; Matthew Biggerstaff; Nikos I Bosse; Johannes Bracher; Estee Y Cramer; Sebastian Funk; Aaron Gerding; Michael A Johansson; Aaron Rumack; Yijin Wang; Martha Zorn; Ryan J Tibshirani; Nicholas G Reich
Journal:  Int J Forecast       Date:  2022-07-01

6.  Enhancing long-term forecasting: Learning from COVID-19 models.

Authors:  Hazhir Rahmandad; Ran Xu; Navid Ghaffarzadegan
Journal:  PLoS Comput Biol       Date:  2022-05-19       Impact factor: 4.779

7.  Evaluation of individual and ensemble probabilistic forecasts of COVID-19 mortality in the United States.

Authors:  Estee Y Cramer; Evan L Ray; Velma K Lopez; Johannes Bracher; Andrea Brennen; Alvaro J Castro Rivadeneira; Aaron Gerding; Tilmann Gneiting; Katie H House; Yuxin Huang; Dasuni Jayawardena; Abdul H Kanji; Ayush Khandelwal; Khoa Le; Anja Mühlemann; Jarad Niemi; Apurv Shah; Ariane Stark; Yijin Wang; Nutcha Wattanachit; Martha W Zorn; Youyang Gu; Sansiddh Jain; Nayana Bannur; Ayush Deva; Mihir Kulkarni; Srujana Merugu; Alpan Raval; Siddhant Shingi; Avtansh Tiwari; Jerome White; Neil F Abernethy; Spencer Woody; Maytal Dahan; Spencer Fox; Kelly Gaither; Michael Lachmann; Lauren Ancel Meyers; James G Scott; Mauricio Tec; Ajitesh Srivastava; Glover E George; Jeffrey C Cegan; Ian D Dettwiller; William P England; Matthew W Farthing; Robert H Hunter; Brandon Lafferty; Igor Linkov; Michael L Mayo; Matthew D Parno; Michael A Rowland; Benjamin D Trump; Yanli Zhang-James; Samuel Chen; Stephen V Faraone; Jonathan Hess; Christopher P Morley; Asif Salekin; Dongliang Wang; Sabrina M Corsetti; Thomas M Baer; Marisa C Eisenberg; Karl Falb; Yitao Huang; Emily T Martin; Ella McCauley; Robert L Myers; Tom Schwarz; Daniel Sheldon; Graham Casey Gibson; Rose Yu; Liyao Gao; Yian Ma; Dongxia Wu; Xifeng Yan; Xiaoyong Jin; Yu-Xiang Wang; YangQuan Chen; Lihong Guo; Yanting Zhao; Quanquan Gu; Jinghui Chen; Lingxiao Wang; Pan Xu; Weitong Zhang; Difan Zou; Hannah Biegel; Joceline Lega; Steve McConnell; V P Nagraj; Stephanie L Guertin; Christopher Hulme-Lowe; Stephen D Turner; Yunfeng Shi; Xuegang Ban; Robert Walraven; Qi-Jun Hong; Stanley Kong; Axel van de Walle; James A Turtle; Michal Ben-Nun; Steven Riley; Pete Riley; Ugur Koyluoglu; David DesRoches; Pedro Forli; Bruce Hamory; Christina Kyriakides; Helen Leis; John Milliken; Michael Moloney; James Morgan; Ninad Nirgudkar; Gokce Ozcan; Noah Piwonka; Matt Ravi; Chris Schrader; Elizabeth Shakhnovich; Daniel Siegel; Ryan Spatz; Chris Stiefeling; Barrie Wilkinson; Alexander Wong; Sean Cavany; Guido España; Sean Moore; Rachel Oidtman; Alex Perkins; David Kraus; Andrea Kraus; Zhifeng Gao; Jiang Bian; Wei Cao; Juan Lavista Ferres; Chaozhuo Li; Tie-Yan Liu; Xing Xie; Shun Zhang; Shun Zheng; Alessandro Vespignani; Matteo Chinazzi; Jessica T Davis; Kunpeng Mu; Ana Pastore Y Piontti; Xinyue Xiong; Andrew Zheng; Jackie Baek; Vivek Farias; Andreea Georgescu; Retsef Levi; Deeksha Sinha; Joshua Wilde; Georgia Perakis; Mohammed Amine Bennouna; David Nze-Ndong; Divya Singhvi; Ioannis Spantidakis; Leann Thayaparan; Asterios Tsiourvas; Arnab Sarker; Ali Jadbabaie; Devavrat Shah; Nicolas Della Penna; Leo A Celi; Saketh Sundar; Russ Wolfinger; Dave Osthus; Lauren Castro; Geoffrey Fairchild; Isaac Michaud; Dean Karlen; Matt Kinsey; Luke C Mullany; Kaitlin Rainwater-Lovett; Lauren Shin; Katharine Tallaksen; Shelby Wilson; Elizabeth C Lee; Juan Dent; Kyra H Grantz; Alison L Hill; Joshua Kaminsky; Kathryn Kaminsky; Lindsay T Keegan; Stephen A Lauer; Joseph C Lemaitre; Justin Lessler; Hannah R Meredith; Javier Perez-Saez; Sam Shah; Claire P Smith; Shaun A Truelove; Josh Wills; Maximilian Marshall; Lauren Gardner; Kristen Nixon; John C Burant; Lily Wang; Lei Gao; Zhiling Gu; Myungjin Kim; Xinyi Li; Guannan Wang; Yueying Wang; Shan Yu; Robert C Reiner; Ryan Barber; Emmanuela Gakidou; Simon I Hay; Steve Lim; Chris Murray; David Pigott; Heidi L Gurung; Prasith Baccam; Steven A Stage; Bradley T Suchoski; B Aditya Prakash; Bijaya Adhikari; Jiaming Cui; Alexander Rodríguez; Anika Tabassum; Jiajia Xie; Pinar Keskinocak; John Asplund; Arden Baxter; Buse Eylul Oruc; Nicoleta Serban; Sercan O Arik; Mike Dusenberry; Arkady Epshteyn; Elli Kanal; Long T Le; Chun-Liang Li; Tomas Pfister; Dario Sava; Rajarishi Sinha; Thomas Tsai; Nate Yoder; Jinsung Yoon; Leyou Zhang; Sam Abbott; Nikos I Bosse; Sebastian Funk; Joel Hellewell; Sophie R Meakin; Katharine Sherratt; Mingyuan Zhou; Rahi Kalantari; Teresa K Yamana; Sen Pei; Jeffrey Shaman; Michael L Li; Dimitris Bertsimas; Omar Skali Lami; Saksham Soni; Hamza Tazi Bouardi; Turgay Ayer; Madeline Adee; Jagpreet Chhatwal; Ozden O Dalgic; Mary A Ladd; Benjamin P Linas; Peter Mueller; Jade Xiao; Yuanjia Wang; Qinxia Wang; Shanghong Xie; Donglin Zeng; Alden Green; Jacob Bien; Logan Brooks; Addison J Hu; Maria Jahja; Daniel McDonald; Balasubramanian Narasimhan; Collin Politsch; Samyak Rajanala; Aaron Rumack; Noah Simon; Ryan J Tibshirani; Rob Tibshirani; Valerie Ventura; Larry Wasserman; Eamon B O'Dea; John M Drake; Robert Pagano; Quoc T Tran; Lam Si Tung Ho; Huong Huynh; Jo W Walker; Rachel B Slayton; Michael A Johansson; Matthew Biggerstaff; Nicholas G Reich
Journal:  Proc Natl Acad Sci U S A       Date:  2022-04-08       Impact factor: 12.779

8.  Combining probabilistic forecasts of COVID-19 mortality in the United States.

Authors:  James W Taylor; Kathryn S Taylor
Journal:  Eur J Oper Res       Date:  2021-06-28       Impact factor: 6.363

9.  The forecast of COVID-19 spread risk at the county level.

Authors:  Murtadha D Hssayeni; Arjuna Chala; Roger Dev; Lili Xu; Jesse Shaw; Borko Furht; Behnaz Ghoraani
Journal:  J Big Data       Date:  2021-07-07

10.  Hawkes process modeling of COVID-19 with mobility leading indicators and spatial covariates.

Authors:  Wen-Hao Chiang; Xueying Liu; George Mohler
Journal:  Int J Forecast       Date:  2021-07-13
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