Items where Data Creator is Funk, Sebastian"
Number of items: 86.
  • superspreading: Understand Individual-Level Variation in Infectious Disease Transmission. (2025) Lambert, Joshua W.; Kucharski, Adam J.; Adam, Dillon C.; Funk, Sebastian; Gupte, Pratik; Gruson, Hugo; Azam, James M.; Hartgerink, Chris
  • kingaa/pomp. (2025) King, Aaron A; O'Dea, Eamon; Asfaw, Kidus; Wheeler, Jesse; Breto, Carles; Ionides, Edward; Akinshin, Andrey; Voipio, Timo; Funk, Sebastian
  • simulist: Simulate Disease Outbreak Line List and Contacts Data. (2025) Lambert, Joshua W.; Tamayo, Carmen; Gruson, Hugo; Gupte, Pratik R.; Kucharski, Adam J.; Hartgerink, Chris; Funk, Sebastian
  • epiforecasts/eval-by-method. (2025) Sherratt, Katharine; Funk, Sebastian
  • epinowcast/epidist. (2025) Abbott, Sam; Howes, Adam; Park, Sang Woo; Funk, Sebastian; Bayer, Damon; DeWitt, Michael
  • epichains: Simulating and Analysing Transmission Chain Statistics Using Branching Process Models. (2024) Azam, James M.; Funk, Sebastian; Finger, Flavio; Kamvar, Zhian N.; Gruson, Hugo; Mané, Karim; Gupte, Pratik; Lambert, Joshua W.
  • EpiNow2: Estimate Real-Time Case Counts and Time-Varying Epidemiological Parameters. (2024) Abbott, Sam; Hellewell, Joel; Sherratt, Katharine; Gostic, Katelyn; Hickson, Joe; Badr, Hamada S.; DeWitt, Michael; Azam, James M.; EpiForecasts; Funk, Sebastian
  • cfr: Estimate Disease Severity and Case Ascertainment. (2024) Gupte, Pratik R.; Kucharski, Adam J.; Russell, Timothy W.; Lambert, Joshua W.; Gruson, Hugo; Taylor, Tim; Azam, James M.; Degoot, Abdoelnaser M.; Funk, Sebastian
  • epiforecasts/multi-model-information: Publication release. (2024) Sherratt, Katharine; Funk, Sebastian
  • epiforecasts/ringbp. (2023) Abbott, Sam; Hellewell, Joel; Lucas, Tim; Funk, Sebastian; Gimma, Amy
  • epiforecasts/transformation-forecast-evaluation. (2023) Bosse, Nikos; Bracher, Johannes; Abbott, Sam; Funk, Sebastian
  • Data for "Human judgement forecasting of COVID-19 in the UK" by Bosse et. al (2023). (2023) Bosse, Nikos I.; Abbott, Sam; Bracher, Johannes; Van leeuwen, Edwin; Cori, Anne; Funk, Sebastian
  • Weekly CoMix contact matrices for UKHSA COVID-19 dashboard and ONS COVID-19 infection survey age-groups. (2022) Munday, James D.; Jarvis, Christopher I.; Gimma, Amy; Wong, Kerry LM; Van Zandvoort, Kevin; Funk, Sebastian; Edmunds, W John
  • epiforecasts/covid.german.forecasts. (2022) Bosse, Nikos; Abbott, Sam; Funk, Sebastian
  • akira-endo/schooldynamics_FluMatsumoto14-15: Simulating respiratory disease transmission within and between classrooms to assess pandemic management strategies at schools. (2022) Endo, Akira; Uchida, Mitsuo; Liu, Yang; Atkins, Katherine E.; Kucharski, Adam J.; Funk, Sebastian
  • akira-endo/monkeypox_heavytail: Heavy-tailed sexual contact networks and the epidemiology of monkeypox outbreak in non-endemic regions. (2022) Endo, Akira; Murayama, Hiroaki; Abbott, Sam; Ratnayake, Ruwan; Pearson, Carl A. B.; Edmunds, W. John; Fearon, Elizabeth; Funk, Sebastian
  • covid19-forecast-hub-europe/euro-hub-ensemble: Zenodo release. (2022) Sherratt, Katharine; Funk, Sebastian
  • epiforecasts/scoringutils. (2022) Bosse, Nikos; Abbott, Sam; Reich, Nicholas G; Funk, Sebastian
  • covid19-forecast-hub-europe/covid19-forecast-hub-europe. (2022) actions-user; Sherratt, Katharine; Gruson, Hugo; Funk, Sebastian; Bracher, Johannes; BIOCOM-SC; Walraven, Robert; miraanto; h-veronika; Rodiah, Isti; gr3gr3; Kraus, David; hgurung-iem; epiforecasts-bot; Xu, Frost Tianjian; Heyder, Stefan; aniruddhadiga; Abbott, Sam; Sun, Tao; Mingio, Marco; Deuschel, Jannik; pmontman; janezz25; neele-itwm; Gibson, Graham; EpiGraph; Tarantino, Barbara; Karlen, Dean; Bhatia, Sangeeta; borjarv
  • epiforecasts/ons_severity_estimates. (2022) Funk, Sebastian
  • Supplementary Material: Climate-sensitive disease outbreaks in the aftermath of extreme climatic events: a scoping review. (2022) Alcayna, Tilly; Fletcher, Isabel; Gibb, Rory; Tremblay, Léo; Funk, Sebastian; Rao, Bhargavi; Lowe, Rachel
  • Mean contacts by age and date. (2022) Gimma, Amy; Munday, James D.; Wong, Kerry L. M.; Coletti, Pietro; Van Zandvoort, Kevin; Prem, Kiesha; Klepac, Petra; Rubin, G. James; Funk, Sebastian; Edmunds, W. John; Jarvis, Christopher I.
  • Real-time estimation of the time-varying transmission advantage of Omicron in England using S-Gene Target Status as a Proxy. (2021) Abbott, Sam; Sherratt, Katharine; Funk, Sebastian
  • National and Subnational Estimates of the Covid 19 Reproduction Number (R) for South Africa Based on Test Results. (2021) Abbott, Sam; Bennett, Christopher; Hickson, Joe; Allen, Jamie; Sherratt, Katharine; Funk, Sebastian
  • akira-endo/schooldynamics_FluMatsumoto14-15: Within and between classroom transmission patterns of seasonal influenza among primary school students in Matsumoto city, Japan. (2021) Endo, Akira; Uchida, Mitsuo; Hayashi, Naoki; Liu, Yang; Atkins, Katherine E.; Kucharski, Adam J.; Funk, Sebastian
  • o2geosocial: Reconstruction of Transmission Chains from Surveillance Data. (2021) Robert, Alexis; Funk, Sebastian; Kucharski, Adam J.; Jombart, Thibaut
  • Local Estimates of the Covid 19 Reproduction Number (R) for the United Kingdom Based on Deaths. (2021) Abbott, Sam; Bennett, Christopher; Hickson, Joe; Allen, Jamie; Sherratt, Katharine; Funk, Sebastian
  • National and Subnational Estimates of the Covid 19 Reproduction Number (R) for Canada Based on Test Results. (2021) Abbott, Sam; Bennett, Christopher; Hickson, Joe; Allen, Jamie; Sherratt, Katharine; Funk, Sebastian
  • epiforecasts/covid19.sgene.utla.rt. (2021) Abbott, Sam; Funk, Sebastian
  • Local Estimates of the Covid 19 Reproduction Number (R) for the United Kingdom Based on Admissions. (2021) Abbott, Sam; Bennett, Christopher; Hickson, Joe; Allen, Jamie; Sherratt, Katharine; Funk, Sebastian
  • reichlab/covidHubUtils. (2021) Wang, Serena Yijin; Stark, Ariane; Evan Ray; Bosse, Nikos; Reich, Nicholas G; Sherratt, Katharine; Shah, Apurv; Wattanachit, Nutcha; Khoale1096; Huang, Yuxin David; Gerding, Aaron; Gruson, Hugo; Cramer, Estee; Shandross, Li; Abbott, Sam; Funk, Sebastian
  • epiforecasts/EpiNow2. (2021) Abbott, Sam; Hickson, Joe; Badr, Hamada S.; Funk, Sebastian; Monticone, Pietro; Ellis, Peter; Munday, James D.; Allen, Jamie; Pearson, Carl A. B.; DeWitt, Michael; Bosse, Nikos; Meakin, Sophie
  • National and Subnational Estimates of the Covid 19 Reproduction Number (R) for Colombia Based on Test Results. (2021) Abbott, Sam; Bennett, Christopher; Hickson, Joe; Allen, Jamie; Sherratt, Katharine; Funk, Sebastian
  • KITmetricslab/covid19-forecast-hub-de. (2021) Bracher, J.; Wolffram, D.; Deuschel, J.; Görgen, K.; Ketterer, J.L.; Ullrich, A.; Abbott, Sam; Barbarossa, M.V.; Bertsimas, D.; Bhatia, S.; Bodych, M.; Bosse, Nikos I.; Burgard, J.P.; Castro, L.; Fairchild, G.; Fuhrmann, J.; Funk, Sebastian; Gogolewski, K.; Gu, Q.; Heyder, S.; Hotz, T.; Kheifetz, Y.; Kirsten, H.; Krueger, T.; Krymova, E.; Li, M.L.; Meinke, J.H.; Michaud, I.J.; Niedzielewski, K.; Ożański, T.; Rakowski, F.; Scholz, M.; Soni, S.; Srivastava, A.; Zieliński, J.; Zou, D.; Gneiting, T.; Schienle, M.
  • Continent Summary Reproduction Number (R) Based on Reported Cases. (2021) Abbott, Sam; Bennett, Christopher; Hickson, Joe; Allen, Jamie; Sherratt, Katharine; Funk, Sebastian
  • National and Subnational Estimates of the Covid 19 Reproduction Number (R) for Belgium Based on Test Results. (2021) Abbott, Sam; Bennett, Christopher; Hickson, Joe; Allen, Jamie; Sherratt, Katharine; Funk, Sebastian
  • Supplementary material from "Interventions targeting non-symptomatic cases can be important to prevent local outbreaks: SARS-CoV-2 as a case study". (2021) Lovell-Read, Francesca A.; Funk, Sebastian; Obolski, Uri; Donnelly, Christl A.; Thompson, Robin N.
  • CoMix - Age structured contact matrices for 9 key periods of the COVID-19 epidemic in England. (2021) Munday, James D; Jarvis, Christopher I.; Gimma, Amy; Wong, Kerry L; van Zandvoort, Kevin; Funk, Sebastian; Edmunds, W. John
  • Data and R code accompanying the manuscript "The impact of population-wide rapid antigen testing on SARS-CoV-2 prevalence in Slovakia". (2021) Pavelka, Martin; van Zandvoort, Kevin; Abbott, Sam; Sherratt, Katharine; Majdan, Marek; Jarcuska, Pavel; Krajci, Marek; Flasche, Stefan; Funk, Sebastian
  • Analysis data and code for "Estimated transmissibility and impact of SARS-CoV-2 lineage B.1.1.7 in England". (2021) Davies, Nicholas G.; Abbott, Sam; Barnard, Rosanna C.; Jarvis, Christopher I.; Kucharski, Adam J.; Munday, James; Pearson, Carl A. B.; Russell, Timothy W.; Tully, Damien C.; Washburne, Alex D.; Wenseleers, Tom; Gimma, Amy; Waites, William; Wong, Kerry LM; van Zandvoort, Kevin; Silverman, Justin D.; Diaz-Ordaz, Karla; Keogh, Ruth; Eggo, Rosalind M.; Funk, Sebastian; Jit, Mark; Atkins, Katherine E.; Edmunds, W. John
  • Analysis data and code for "Estimated transmissibility and impact of SARS-CoV-2 Variant of Concern 202012/01 in England". (2021) Davies, Nicholas G.; Abbott, Sam; Barnard, Rosanna C.; Jarvis, Christopher I.; Kucharski, Adam J.; Munday, James; Pearson, Carl A. B.; Russell, Timothy W.; Tully, Damien C.; Washburne, Alex D.; Wenseleers, Tom; Gimma, Amy; Waites, William; Wong, Kerry LM; van Zandvoort, Kevin; Silverman, Justin D.; Diaz-Ordaz, Karla; Keogh, Ruth; Eggo, Rosalind M.; Funk, Sebastian; Jit, Mark; Atkins, Katherine E.; Edmunds, W. John
  • covidregionaldata: Subnational data for COVID-19 epidemiology. (2021) Palmer, Joseph; Sherratt, Katharine; Martin-Nielsen, Richard; Bevan, Jonnie; Gibbs, Hamish; CMMID COVID-19 Working Group; Funk, Sebastian; Abbott, Sam
  • Local Estimates of the Covid 19 Reproduction Number (R) for the United Kingdom Based on Test Results. (2020) Abbott, Sam; Bennett, Christopher; Hickson, Joe; Allen, Jamie; Sherratt, Katharine; Funk, Sebastian
  • o2geosocial. (2020) Robert, Alexis; Funk, Sebastian; Kucharski, Adam J.
  • Collated Results of the National and Subnational Estimates of the Covid 19 Reproduction Number (R) for the United Kingdom Based on Tests, Hospital Admissions and Deaths. (2020) Abbott, Sam; Bennett, Christopher; Hickson, Joe; Allen, Jamie; Sherratt, Katharine; Funk, Sebastian
  • Continent Summary Reproduction Number (R) Based on Reported Deaths. (2020) Abbott, Sam; Bennett, Christopher; Hickson, Joe; Allen, Jamie; Sherratt, Katharine; Funk, Sebastian
  • National Reproduction Number (R) Based on Reported Cases. (2020) Abbott, Sam; Bennett, Christopher; Hickson, Joe; Allen, Jamie; Sherratt, Katharine; Funk, Sebastian
  • National Reproduction Number (R) Estimates Based on Reported Deaths. (2020) Abbott, Sam; Bennett, Christopher; Hickson, Joe; Allen, Jamie; Sherratt, Katharine; Funk, Sebastian
  • National and Subnational Estimates of the Covid 19 Reproduction Number (R) for Brazil Based on Test Results. (2020) Abbott, Sam; Bennett, Christopher; Hickson, Joe; Allen, Jamie; Sherratt, Katharine; Funk, Sebastian
  • National and Subnational Estimates of the Covid 19 Reproduction Number (R) for Germany Based on Test Results. (2020) Abbott, Sam; Bennett, Christopher; Hickson, Joe; Allen, Jamie; Sherratt, Katharine; Funk, Sebastian
  • National and Subnational Estimates of the Covid 19 Reproduction Number (R) for India Based on Test Results. (2020) Abbott, Sam; Bennett, Christopher; Hickson, Joe; Allen, Jamie; Sherratt, Katharine; Funk, Sebastian
  • National and Subnational Estimates of the Covid 19 Reproduction Number (R) for Italy Based on Test Results. (2020) Abbott, Sam; Bennett, Christopher; Hickson, Joe; Allen, Jamie; Sherratt, Katharine; Funk, Sebastian
  • National and Subnational Estimates of the Covid 19 Reproduction Number (R) for the United Kingdom Based on Deaths. (2020) Abbott, Sam; Bennett, Christopher; Hickson, Joe; Allen, Jamie; Sherratt, Katharine; Funk, Sebastian
  • National and Subnational Estimates of the Covid 19 Reproduction Number (R) for the United Kingdom Based on Hospital Admissions. (2020) Abbott, Sam; Bennett, Christopher; Hickson, Joe; Allen, Jamie; Sherratt, Katharine; Funk, Sebastian
  • National and Subnational Estimates of the Covid 19 Reproduction Number (R) for the United Kingdom Based on Test Results. (2020) Abbott, Sam; Bennett, Christopher; Hickson, Joe; Allen, Jamie; Sherratt, Katharine; Funk, Sebastian
  • National and Subnational Estimates of the Covid 19 Reproduction Number (R) for the United States of America Based on Test Results. (2020) Abbott, Sam; Bennett, Christopher; Hickson, Joe; Allen, Jamie; Sherratt, Katharine; Funk, Sebastian
  • RtD3. (2020) Gibbs, Hamish; Abbott, Sam; Funk, Sebastian
  • COVID19 settings of transmission - collected reports database. (2020) Leclerc, Quentin J.; Fuller, Naomi M.; Knight, Lisa E.; Funk, Sebastian; Knight, Gwenan M.
  • sbfnk/rbi.helpers. (2020) Funk, Sebastian; Finger, Flavio
  • epiforecasts/covid: Submission release. (2020) Abbott, Sam; Sherratt, Katharine; Funk, Sebastian; Hellewell, Joel
  • akira-endo/COVID19_clustersize: Estimating the amount of superspreading using outbreak sizes of COVID-19 outside China. (2020) Endo, Akira; Abbott, Sam; Kucharski, Adam J.; Funk, Sebastian
  • Extended data: Estimating the overdispersion in COVID-19 transmission using outbreak sizes outside China. (2020) Endo, Akira; Abbott, Sam; Kucharski, Adam J.; Funk, Sebastian
  • Age-structured SEIR model for COVID-19 outbreak in Wuhan, China. (2020) Prem, Kiesha; Liu, Yang; Russell, Timothy W; Kucharski, Adam J; Eggo, Rosalind M; Davies, Nicholas G; Jit, Mark; Klepac, Petra; Flasche, Stefan; Clifford, Samuel; Pearson, Carl A B; Munday, James D; Abbott, Sam; Gibbs, Hamish; Rosello, Alicia; Quilty, Billy J; Jombart, Thibaut; Sun, Fiona; Diamond, Charlie; Gimma, Amy; Van zandvoort, Kevin; Funk, Sebastian; Jarvis, Christopher I; Edmunds, W John; Bosse, Nikos I; Hellewell, Joel
  • yangclaraliu/2019nCoV_proportion_asym: WOR Submission. (2020) Liu, Yang; Funk, Sebastian; Flasche, Stefan
  • Social Contact Rates (SOCRATES) Data Tool. (2020) Willem, Lander; Hoang, Van Thang; Funk, Sebastian; Coletti, Pietro; Beutels, Philippe; Hens, Niel
  • Inferring COVID-19 cases from deaths of confirmed cases. (2020) Jombart, Thibaut; Abbott, Sam; Gimma, Amy; Zandvoort, Kevin; Clifford, Samuel; Jarvis, Christopher; Russell, Timothy; Funk, Sebastian; Gibbs, Hamish; Eggo, Rosalind M.; Kucharski, Adam J.; CMMID COVID-19 Working Group; Edmunds, W. John
  • Feasibility of controlling COVID-19 outbreaks by isolation of cases and contacts. (2020) Hellewell, Joel; Abbott, Sam; Gimma, Amy; Bosse, Nikos; Jarvis, Christopher; Russell, Timothy; Munday, James; Kucharski, Adam; Edmunds, W John; Funk, Sebastian; Eggo, Rosalind; Sun, Fiona; Flasche, Stefan; Quilty, Billy; Davies, Nicholas; Liu, Yang; Clifford, Samuel; Klepac, Petra; Jit, Mark; Diamond, Charlie; Gibbs, Hamish; Van Zandvoort, Kevin
  • Probability of a large 2019-nCoV outbreak following introduction of cases. (2020) Kucharski, Adam J.; Russell, Timothy W.; Diamond, Charlie; CMMID nCoV working group; Funk, Sebastian; Eggo, Rosalind M.
  • epiforecasts/WuhanSeedingVsTransmission: Resubmission to Wellcome Open Research. (2020) Abbott, Sam; Funk, Sebastian; Munday, James D.; Hellewell, Joel
  • Wuhan Seeding Vs Transmission. (2020) Abbott, Sam; Funk, Sebastian; Munday, James D.; Hellewell, Joel
  • Pathways to Low Fertility. (2020) Abbott, Sam; Funk, Sebastian; Munday, James D.; Hellewell, Joel
  • Social Contacts Data. (2019) Funk, Sebastian; White, Richard; Edmunds, W. John
  • sbfnk/epimixr. (2019) Funk, Sebastian
  • Additional file 2: of Real-time analysis of the diphtheria outbreak in forcibly displaced Myanmar nationals in Bangladesh. (2019) Finger, Flavio; Funk, Sebastian; White, Kate; Siddiqui, M. Ruby; Edmunds, W. John; Kucharski, Adam J.
  • Real-time analysis of the diphtheria outbreak in forcibly displaced Myanmar nationals in Bangladesh. (2019) Finger, Flavio; Funk, Sebastian; White, Kate; Siddiqui, M. Ruby; Edmunds, W. John; Kucharski, Adam J.
  • R Code accompanying the manuscript "Assessing the performance of real-time epidemic forecasts: A case study of Ebola in the Western Area region of Sierra Leone, 2014-15". (2019) Funk, Sebastian
  • adamkucharski/fiji-denv3-2014. (2018) Kucharski, Adam J; Kama, Mike; Watson, Conall H; Aubry, Maite; Funk, Sebastian; Henderson, Alasdair D; Brady, Oliver J; Vanhomwegen, Jessica; Manuguerra, Jean-Claude; Lau, Colleen L; Edmunds, W John; Aaskov, John; Nilles, Eric James; Cao-Lormeau, Van-Mai; Hue, Stephane; Hibberd, Martin L
  • Follow up time from The relative fitness of drug-resistant Mycobacterium tuberculosis: a modelling study of household transmission in Peru. (2018) Knight, Gwenan M.; Zimic, Mirko; Funk, Sebastian; Gilman, Robert H.; Friedland, Jon S.; Grandjean, Louis
  • Socialmixr: Social Mixing Matrices for Infectious Disease Modelling. (2018) Funk, Sebastian
  • Ebola Dataset for "Learning Clinical Epidemiology with R" tutorial. (2017) Marks, Michael; Camacho, Anton; Kucharski, Adam; Funk, Sebastian; Edmunds, John; Piot, Peter description
  • R files for: Mathematical Modeling of Programmatic Requirements for Yaws Eradication. (2017) Marks, Michael; Mitja, Oriol; Fitzpatrick, Christopher; Asiedu, Kingsley; Solomon, Anthony W.; Mabey, David; Funk, Sebastian description
  • rbi: R Interface to LibBi. (2017) Jacob, Pierre E.; Lee, Anthony; Murray, Lawrence; Funk, Sebastian
  • S1 Dataset for "Transmission Dynamics of Zika Virus in Island Populations: A Modelling Analysis of the 2013–14 French Polynesia Outbreak". (2016) Kucharski, Adam J.; Funk, Sebastian; Eggo, Rosalind M.; Mallet, Henri-Pierre; Edmunds, W. John; Nilles, Eric J. description
  • Ebola virus disease in the Democratic Republic of the Congo, 1976-2014: Figures and Data. (2015) Rosello, Alicia; Mossoko, Mathias; Flasche, Stefan; Vanhoek, Albert; Mbala, Placide; Camacho, Anton; Funk, Sebastian; Kucharski, Adam; Ilunga, Benoit Kebela; Edmunds, John; Piot, Peter; Baguelin, Marc; Tamfum, Jean-Jacques Muyembe description
  • Bed capacity for Ebola patients in Sierra Leone. (2015) Camacho, Anton; Kucharski, Adam J.; Aki-Sawyerr, Y; White, M A; Flasche, Stefan; Baguelin, Marc; Pollington, T M; Carney, J; Glover, Rebecca; Smout, E; Tiffany, A; Edmunds, W. John; Funk, Sebastian
  • Potential for large outbreaks of Ebola virus disease: Supplementary Data. (2014) Camacho, Anton; Kucharski, Adam; Funk, Sebastian; Breman, J; Piot, Peter; Edmunds, John