Project

Pavlich-Mariscal, J, Eggo, RM, Kucharski, AJ, Gruson, H, Russell, TW, Valle Campos, A, Cucunubá, ZM, Santos-Vega, M, Gupte, P, Azam, J, Torres Domínguez, N, Lambert, J, Gomez, G, Umaña, JD, Quevedo-Vega, DS, Gámez López, ME and Carnegie, A (2023). epiverse-trace. [Project]. London School of Hygiene & Tropical Medicine, London, United Kingdom. https://github.com/epiverse-trace

Enria, L, Waterlow, N, Rogers, N, Brindle, H, Lal, S, Eggo, RM, Lees, S and Roberts, C (2020). Trust and Transparency in times of Crisis: Results from an Online Survey During the First Wave (April 2020) of the COVID-19 Epidemic in the UK. [Project]. London School of Hygiene & Tropical Medicine, London, United Kingdom. https://doi.org/10.17037/DATA.00001860.

Data Collection

Van zandvoort, K, Hassan, AI, Bobe, MO, Pell, CL, Ahmed, MS, Ortika, BD, Ibrahim, S, Abdi, MI, Karim, MA, Eggo, RM, Yusuf, S, Hinds, J, Soleman, SM, Cummings, R, Mcgowan, CR, Mulholland, EK, Satzke, C, Hergeeye, MA, Checchi, F and Flasche, S (2024). Pre-vaccination carriage prevalence of Streptococcus pneumoniae serotypes among internally displaced people in Somaliland. Data and analyses. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.11493115

Gupte, P, Van Leeuwen, E, Kucharski, A, Eggo, RM, Gruson, H, Jombart, T, Valle Campos, A and Lambert, JW (2024). finalsize: Calculate the Final Size of an Epidemic. [Data Collection]. Comprehensive R Archive Network. https://cran.r-project.org/package=finalsize

Pearson, CAB, Thompson, S, Van Zandvoort, K, Eggo, RM and Jarvis, CI (2023). cmmid/covidm_reports: HEA Snapshot. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.7741616

Liu, Y, Procter, SR, Pearson, CAB, Madriz Montero, A, Torres-Rueda, S, Asfaw, E, Uzochukwu, B, Drake, T, Bergren, E, Eggo, RM, Ruiz, F, Ndembi, N, Nonvignon, J, Jit, M and Vassall, A (2023). yangclaraliu/covid_vac_africa: BMCMed_R3. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.7618748

van zandvoort, K, Bobe, MO, Hassan, AI, Abdi, MI, Ahmed, MS, Soleman, SM, Warsame, MY, Wais, MA, Diggle, E, McGowan, CR, Satzke, C, Mulholland, K, Egeh, MM, Hassan, MM, Hergeeye, MA, Eggo, RM, Checchi, F and Flasche, S (2022). kevinvzandvoort/espicc-somaliland-digaale-survey-2019. [Data Collection]. GitHub. https://github.com/kevinvzandvoort/espicc_somaliland_digaale_contact_survey_2019

Van Zandvoort, K, Bobe, MO, Hassan, AI, Abdi, MI, Ahmed, MS, Soleman, SM, Warsame, MY, Wais, MA, Diggle, E, Satzke, C, Mulholland, K, Egeh, MM, Hassan, MM, Hergeeye, MA, Eggo, RM, Checchi, F, Flasche, S and Mcgowan, CR (2022). Social contacts and other risk factors for respiratory infections among internally displaced people in Somaliland. Data and analyses. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.5225140

Gibbs, H, Waterlow, NR, Cheshire, J, Danon, L, Liu, Y, Grundy, C, Kucharski, AJ and Eggo, RM (2022). hamishgibbs/facebook_population_2020_2021. [Data Collection]. Github. https://github.com/hamishgibbs/facebook_population_2020_2021

Waterlow, NR, Van Leeuwen, E, Davies, N, Flasche, S and Eggo, RM (2021). cmmid/coronavirus_immunity. [Data Collection]. Github. https://github.com/cmmid/coronavirus_immunity

Van Zandvoort, K, Bobe, MO, Hassan, AI, Abdi, MI, Ahmed, MS, Warsame, MY, Wais, MA, Diggle, E, Satzke, C, Mulholland, K, Egeh, MM, Hassan, MM, Hergeeye, MA, Eggo, RM, Checchi, F and Flasche, S (2021). Social contact data for IDPs in Somaliland (2019). [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.5226280

Pearson, CAB, Bozzani, F, Procter, SR, Davies, NG, Huda, M, Jensen, HT, Keogh-Brown, M, Khalid, M, Sweeney, S, Torres-Rueda, S, Eggo, RM, Vassall, A and Jit, M (2021). Simulation results for "COVID-19 vaccination in Sindh Province, Pakistan: a modelling study of health impact and cost-effectiveness". [Data Collection]. Zenodo. http://doi.org/10.5281/zenodo.5070957

Roberts, C, Brindle, H, Rogers, N, Eggo, RM, Enria, L and Lees, S (2021). Data for: "Vaccine Confidence and Hesitancy at the start of COVID-19 vaccine deployment in the UK: An embedded mixed-methods study". [Data Collection]. London School of Hygiene & Tropical Medicine, London, United Kingdom. https://doi.org/10.17037/DATA.00002337.

Gibbs, H, Waterlow, NR, Cheshire, J, Danon, L, Liu, Y, Grundy, C, Kucharski, AJ and Eggo, RM (2021). Population disruption: estimating changes in population distribution in the UK during the COVID-19 pandemic - Estimates for Local Authority Districts. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.5013619

Davies, NG, Abbott, S, Barnard, RC, Jarvis, CI, Kucharski, AJ, Munday, J, Pearson, CAB, Russell, TW, Tully, DC, Washburne, AD, Wenseleers, T, Gimma, A, Waites, W, Wong, KL, van Zandvoort, K, Silverman, JD, Diaz-Ordaz, K, Keogh, R, Eggo, RM, Funk, S, Jit, M, Atkins, KE and Edmunds, WJ (2021). Analysis data and code for "Estimated transmissibility and impact of SARS-CoV-2 lineage B.1.1.7 in England". [Data Collection]. Zenodo. http://doi.org/10.5281/zenodo.4562961

Davies, NG, Abbott, S, Barnard, RC, Jarvis, CI, Kucharski, AJ, Munday, J, Pearson, CAB, Russell, TW, Tully, DC, Washburne, AD, Wenseleers, T, Gimma, A, Waites, W, Wong, KL, van Zandvoort, K, Silverman, JD, Diaz-Ordaz, K, Keogh, R, Eggo, RM, Funk, S, Jit, M, Atkins, KE and Edmunds, WJ (2021). Analysis data and code for "Estimated transmissibility and impact of SARS-CoV-2 Variant of Concern 202012/01 in England". [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.4549674

Gaskell, KM, Johnson, M, Gould, V, Hunt, A, Stone, NR, Waites, W, Kasstan, B, Chantler, T, Lal, S, Roberts, Ch, Goldblatt, D, Eggo, RM and Marks, M (2021). Extremely high SARS-CoV-2 seroprevalence in a strictly-Orthodox Jewish community in the UK. [Data Collection]. London School of Hygiene & Tropical Medicine, London, United Kingdom. https://doi.org/10.17037/DATA.00002084.

Enria, L, Waterlow, N, Rogers, N, Brindle, H, Lal, S, Eggo, RM, Lees, S and Roberts, C (2021). Trust and Transparency in times of Crisis: Results from an Online Survey During the First Wave (April 2020) of the COVID-19 Epidemic in the UK - Quantitative Data. [Data Collection]. London School of Hygiene & Tropical Medicine, London, United Kingdom. https://doi.org/10.17037/DATA.00002015.

Gibbs, H, Jarvis, CI and Eggo, RM (2021). uk_tier_data. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.4421648

Enria, L, Waterlow, N, Rogers, N, Brindle, H, Lal, S, Eggo, RM, Lees, S and Roberts, C (2020). Trust and Transparency in times of Crisis: Results from an Online Survey During the First Wave (April 2020) of the COVID-19 Epidemic in the UK - Qualitative Data. [Data Collection]. London School of Hygiene & Tropical Medicine, London, United Kingdom. https://doi.org/10.17037/DATA.00001859.

Dawa, J, Emukule, GO, Barasa, E, Widdowson, MA, Anzala, O, Van leeuwen, E, Baguelin, M, Chaves, SS and Eggo, RM (2020). Additional file 1 of Seasonal influenza vaccination in Kenya: an economic evaluation using dynamic transmission modelling. [Data Collection]. Figshare. https://doi.org/10.6084/m9.figshare.12831240.v1

Dawa, J, Emukule, GO, Barasa, E, Widdowson, MA, Anzala, O, Van Leeuwen, E, Baguelin, M, Chaves, SS and Eggo, RM (2020). Additional file 3 of Seasonal influenza vaccination in Kenya: an economic evaluation using dynamic transmission modelling. [Data Collection]. Figshare. https://doi.org/10.6084/m9.figshare.12831246.v1

Walker, J, Grint, D, Strongman, H, Eggo, RM, Peppa, M, Minassian, C, Mansfield, KE, Rentsch, C, Douglas, IJ, Mathur, R, Wong, A, Quint, JK, Andrews, N, Lopez-bernal, J, Scott, A, Ramsay, M, Smeeth, L and McDonald, H (2020). UK prevalence of risk factors for severe COVID-19 disease, by age and region: point prevalence estimates in 2019 and 2014, using electronic health records. [Data Collection]. London School of Hygiene & Tropical Medicine, London, United Kingdom. https://doi.org/10.17037/DATA.00001833.

Clifford, S, Quilty, BJ, Russell, TW, Liu, Y, Chan, YD, Pearson, CAB, Eggo, RM, Endo, A, CMMID COVID-19 Working Group, Flasche, S and Edmunds, WJ (2020). cmmid/travel_screening_strategies. [Data Collection]. Github. https://github.com/cmmid/travel_screening_strategies

Russell, TW, Golding, N, Hellewell, J, Abbott, S, Pearson, CAB, Van zandvoort, K, Jarvis, CI, Gibbs, H, Liu, Y, Eggo, RM, Edmunds, WJ, Kucharski, AJ and CMMID COVID-19 working group (2020). Reconstructing the global dynamics of unreported COVID-19 cases and infections. [Data Collection]. Github. https://github.com/thimotei/covid_underreporting

Pearson, CAB, Van zandvoort, K, Jarvis, CI, Davies, NG, Thompson, S, Checchi, F, Jit, M, Eggo, RM and LSHTM CMMID COVID-19 Working Group (2020). Projections of COVID-19 epidemics in LMIC countries. [Data Collection]. London School of Hygiene & Tropical Medicine, London, United Kingdom. https://doi.org/10.17037/DATA.00001564.

Gibbs, H, CMMID nCov Working Group, Eggo, RM, Grundy, C and Kucharski, AJ (2020). UK Colocation Dashboard. [Data Collection]. Github. https://cmmid.github.io/colocation_dashboard_cmmid/

Davies, NG, Kucharski, AJ, Eggo, RM, Gimma, A, COVID-19 Working Group and Edmunds, WJ (2020). cmmid/covid-uk. [Data Collection]. Github. https://github.com/cmmid/covid-uk

Russell, TW, Hellewell, J, Jarvis, CI, Van-Zandvoort, K, Abbott, S, Ratnayake, R, Flasche, S, Eggo, RM and Kucharski, AJ (2020). Estimating the infection and case fatality ratio for COVID-19 using age-adjusted data from the outbreak on the Diamond Princess cruise ship. [Data Collection]. Github. https://github.com/thimotei/cCFRDiamondPrincess

Russell, TW, Hellewell, J, Abbott, S, Jarvis, C, Zandvoort, Kv, Ratnayake, R, CMMID nCov working group, Flasche, S, Eggo, RM, Edmunds, WJ and Kucharski, AJ (2020). thimotei/CFR_calculation. [Data Collection]. Github. https://github.com/thimotei/CFR_calculation

Prem, K, Liu, Y, Russell, TW, Kucharski, AJ, Eggo, RM, Davies, NG, Jit, M, Klepac, P, Flasche, S, Clifford, S, Pearson, CAB, Munday, JD, Abbott, S, Gibbs, H, Rosello, A, Quilty, BJ, Jombart, T, Sun, F, Diamond, C, Gimma, A, Van zandvoort, K, Funk, S, Jarvis, CI, Edmunds, WJ, Bosse, NI and Hellewell, J (2020). Age-structured SEIR model for COVID-19 outbreak in Wuhan, China. [Data Collection]. Github. https://github.com/kieshaprem/covid19-agestructureSEIR-wuhan-social-distancing

Jombart, T, Abbott, S, Gimma, A, Zandvoort, K, Clifford, S, Jarvis, C, Russell, T, Funk, S, Gibbs, H, Eggo, RM, Kucharski, AJ, CMMID COVID-19 Working Group and Edmunds, WJ (2020). Inferring COVID-19 cases from deaths of confirmed cases. [Data Collection]. CMMID Repository. https://cmmid.github.io/visualisations/inferring-covid19-cases-from-deaths

Hellewell, J, Abbott, S, Gimma, A, Bosse, N, Jarvis, C, Russell, T, Munday, J, Kucharski, A, Edmunds, WJ, Funk, S, Eggo, R, Sun, F, Flasche, S, Quilty, B, Davies, N, Liu, Y, Clifford, S, Klepac, P, Jit, M, Diamond, C, Gibbs, H and Van Zandvoort, K (2020). Feasibility of controlling COVID-19 outbreaks by isolation of cases and contacts. [Data Collection]. Github. https://github.com/cmmid/ringbp/

Kucharski, AJ, Russell, TW, Diamond, C, CMMID nCoV working group, Funk, S and Eggo, RM (2020). Probability of a large 2019-nCoV outbreak following introduction of cases. [Data Collection]. Github. https://cmmid.github.io/visualisations/new-outbreak-probability

Clifford, S, Quilty, B, CMMID nCoV working group, Pearson, C, Flasche, S and Eggo, RM (2020). Effectiveness of airport-based interventions at detecting travellers and delaying an outbreak of COVID-19 (formerly 2019-nCoV). [Data Collection]. Github. https://github.com/cmmid/screening_outbreak_delay

Eggo, RM (2018). Computer code of the coinfection model. [Data Collection]. PLOS Pathogens. https://doi.org/10.1371/journal.ppat.1006770.s004.

Kucharski, AJ, Funk, S, Eggo, RM, Mallet, H, Edmunds, WJ and Nilles, EJ (2016). S1 Dataset for "Transmission Dynamics of Zika Virus in Island Populations: A Modelling Analysis of the 2013–14 French Polynesia Outbreak". [Data Collection]. PLoS Neglected Tropical Diseases. https://doi.org/10.1371/journal.pntd.0004726.s016