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  • Research Centres (937)
    • Centre for the Mathematical Modelling of Infectious Diseases (56)
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Number of items at this level: 56.

A

Abbas, KM (2020). vaccine-impact/epi_covid. [Data Collection]. Github. https://github.com/vaccine-impact/epi_covid

Abbott, S, Bennett, C, Hickson, J, Allen, J, Sherratt, K and Funk, S (2021). Local Estimates of the Covid 19 Reproduction Number (R) for the United Kingdom Based on Deaths. [Data Collection]. Harvard Dataverse. https://doi.org/10.7910/DVN/UIM3MB

Abbott, S, Bennett, C, Hickson, J, Allen, J, Sherratt, K and Funk, S (2020). Local Estimates of the Covid 19 Reproduction Number (R) for the United Kingdom Based on Test Results. [Data Collection]. Harvard Dataverse. https://doi.org/10.7910/DVN/ISLFJB

Abbott, S, Bennett, C, Hickson, J, Allen, J, Sherratt, K and Funk, S (2020). National Reproduction Number (R) Based on Reported Cases. [Data Collection]. Harvard Dataverse. https://doi.org/10.7910/DVN/TTLQRN

Abbott, S, Bennett, C, Hickson, J, Allen, J, Sherratt, K and Funk, S (2020). National Reproduction Number (R) Estimates Based on Reported Deaths. [Data Collection]. Harvard Dataverse. https://doi.org/10.7910/DVN/RBZVJE

Abbott, S, Bennett, C, Hickson, J, Allen, J, Sherratt, K and Funk, S (2021). National and Subnational Estimates of the Covid 19 Reproduction Number (R) for Belgium Based on Test Results. [Data Collection]. Harvard Dataverse. https://doi.org/10.7910/DVN/NALGQJ

Abbott, S, Bennett, C, Hickson, J, Allen, J, Sherratt, K and Funk, S (2021). National and Subnational Estimates of the Covid 19 Reproduction Number (R) for Canada Based on Test Results. [Data Collection]. Harvard Dataverse. https://doi.org/10.7910/DVN/2CNKZJ

Abbott, S, Bennett, C, Hickson, J, Allen, J, Sherratt, K and Funk, S (2021). National and Subnational Estimates of the Covid 19 Reproduction Number (R) for Colombia Based on Test Results. [Data Collection]. Harvard Dataverse. https://doi.org/10.7910/DVN/GI8EVP

Abbott, S, Bennett, C, Hickson, J, Allen, J, Sherratt, K and Funk, S (2020). National and Subnational Estimates of the Covid 19 Reproduction Number (R) for the United Kingdom Based on Test Results. [Data Collection]. Harvard Dataverse. https://doi.org/10.7910/DVN/S07EZB

Abbott, S, Gaythorpe, KA, Imai, N and Liu, Y (2020). seabbs/CovidInterventionReview: CC0 license. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.3728162

Abbott, S, Sherratt, K, Funk, S and Hellewell, J (2020). epiforecasts/covid: Submission release. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.3746396

B

Bousema, T (2021). Data from: Higher gametocyte production and mosquito infectivity in chronic compared to incident Plasmodium falciparum infections. [Data Collection]. Dryad. https://doi.org/10.5061/dryad.pc866t1n3

C

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

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

Coletti, P, Wambua, J, Gimma, A, Willem, L, Vercruysse, S, Vanhoutte, B, Jarvis, CI, Van Zandvoort, K, Edmunds, J, Beutels, P and Hens, N (2020). Social contact data from CoMix survey (Belgium). [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.4035001

D

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

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, Jarvis, CI, CMMID COVID-19 Working Group, Edmunds, WJ, Jewell, NP, Diaz-Ordaz, K and Keogh, RH (2021). Increased mortality in community-tested cases of SARS-CoV-2 lineage B.1.1.7. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.4579856

E

Endo, A, Abbott, S, Kucharski, AJ and Funk, S (2020). Extended data: Estimating the overdispersion in COVID-19 transmission using outbreak sizes outside China. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.3740348

Endo, A, Abbott, S, Kucharski, AJ and Funk, S (2020). akira-endo/COVID19_clustersize: Estimating the amount of superspreading using outbreak sizes of COVID-19 outside China. [Data Collection]. Zenodo. http://doi.org/10.5281/zenodo.3741744

Endo, A and Kucharski, AJ (2020). akira-endo/COVID19_backwardtracing. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.4050267

F

Finger, F, Funk, S, White, K, Siddiqui, MR, Edmunds, WJ and Kucharski, AJ (2019). Real-time analysis of the diphtheria outbreak in forcibly displaced Myanmar nationals in Bangladesh. [Data Collection]. Figshare. https://doi.org/10.6084/m9.figshare.7829816.v1.

Fuehrer, H, Dombrowski, JG, Barateiro, A, Peixoto, EPM, Barros, André Boler Cláudio da Silva, Souza, RMd, Clark, TG, Campino, S, Wrenger, C, Wunderlich, G, Palmisano, G, Epiphanio, S, Gonçalves, LA and Marinho, CRF (2021). Study database for: "Adverse pregnancy outcomes are associated with Plasmodium vivax malaria in a prospective cohort of women from the Brazilian Amazon". [Data Collection]. PLOS Neglected Tropical Diseases. https://doi.org/10.1371/journal.pntd.0009390.s009

G

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.

Gibbs, H, Abbott, S and Funk, S (2020). RtD3. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.4011841

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/

Gimma, A, Wong, KL, Van Xandvoort, K, Jarvis, CI and Edmunds, WJ (2021). CoMix social contact data (UK). [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.4905745

H

Hellewell, J, Russell, TW, The SAFER Investigators and Field Study Team, The Crick COVID-19 Consortium, CMMID COVID-19 working group, Beale, R, Kelly, G, Houlihan, C, Nastouli, E and Kucharski, AJ (2020). cmmid/pcr-profile. [Data Collection]. Github. https://github.com/cmmid/pcr-profile

J

Jarvis, C, Van zandvoort, K, Gimma, A, Prem, K, CMMID, Cwg, Klepac, P, Rubin, GJ and Edmunds, WJ (2020). Contact survey during COVID-19. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.3741391

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

Jombart, T, Clifford, S, Pearson, Carl A. B. Pearson, Rees, E, Nightingale, E, Procter, S and Knight, G (2020). thibautjombart/covid19_bed_occupancy: Second major release. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.3746662

Jombart, T, Nouvellet, P, Bhatia, S, Kamvar, ZN, Taylor, T and Ghozzi, S (2020). projections: Project Future Case Incidence. [Data Collection]. The Comprehensive R Archive Network. https://cran.r-project.org/package=projections

Jung, S, Endo, A, Kinoshita, R and Nishiura, H (2021). SungmokJung/Projection_Japan_COVID19 v1.0.0. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.4576936

K

Knight, G (2019). gwenknight/empiricprescribing. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.3418998

Koltai, M (2021). mbkoltai/covid_lmic_model. [Data Collection]. Github. https://github.com/mbkoltai/covid_lmic_model/

Krauer, F and Schmid, BV (2021). Datasets and code for "Mapping the plague through natural language processing". [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.4724015

Kucharski, AJ (2021). adamkucharski/covid-import-model. [Data Collection]. Github. https://github.com/adamkucharski/covid-import-model

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

L

Leclerc, QJ, Fuller, NM, Knight, LE, Funk, S and Knight, GM (2020). COVID19 settings of transmission - collected reports database. [Data Collection]. Figshare. https://doi.org/10.6084/m9.figshare.12173343.v5

Leng, T and Flasche, S (2020). tsleng93/SocialBubble: Social Bubble (including density dependence). [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.3982789

M

Munday, JD, Jarvis, CI, Gimma, A, Wong, KL, van Zandvoort, K, Funk, S and Edmunds, WJ (2021). CoMix - Age structured contact matrices for 9 key periods of the COVID-19 epidemic in England. [Data Collection]. Zenodo. http://doi.org/10.5281/zenodo.4677018

N

Nightingale, E, Waterlow, N, Clifford, S and Rees, E (2020). COVID-19 length of hospital stay. [Data Collection]. Github. https://github.com/esnightingale/los_review

O

Obolski, U, Perez, PN, Villabona Arenas, J, Thézé, J, Faria, NR and Lourenço, J (2019). MVSE: An R‐package that estimates a climate‐driven mosquito‐borne viral suitability index. [Data Collection]. Methods in Ecology and Evolution. https://doi.org/10.1111/2041-210X.13205

P

Pavelka, M, van Zandvoort, K, Abbott, S, Sherratt, K, Majdan, M, Jarcuska, P, Krajci, M, Flasche, S and Funk, S (2021). Data and R code accompanying the manuscript "The impact of population-wide rapid antigen testing on SARS-CoV-2 prevalence in Slovakia". [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.4570938

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.

Prem, K (2021). kieshaprem/synthetic-contact-matrices. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.4889499

Q

Quilty, B (2021). cmmid/covid_quar_test_import_risk. [Data Collection]. Github. https://github.com/cmmid/covid_quar_test_import_risk

Quilty, B (2021). cmmid/quar_test_contact_tracing. [Data Collection]. Github. https://github.com/cmmid/quar_test_contact_tracing

R

Robert, A (2020). geosocial-outbreaker: Integrating geographical and social contact data to reconstruct transmission chains. [Data Collection]. Github. https://github.com/alxsrobert/o2geosocial

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

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, Wu, JT, Clifford, S, CMMID COVID-19 working group, Edmunds, WJ, Kucharski, AJ and Jit, M (2020). thimotei/covid_travel_restrictions. [Data Collection]. Github. https://github.com/thimotei/covid_travel_restrictions

S

Sherratt, K (2020). epiforecasts/rt-comparison-uk-public: v1.0.0. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.4029074

Sumner, T (2018). Mathematical model projections for: "Application of provincial data in mathematical modelling to inform sub-national tuberculosis program decision-making in South Africa". [Data Collection]. London School of Hygiene & Tropical Medicine, London, United Kingdom. https://doi.org/10.17037/DATA.00000950.

W

Wang, SY, Stark, A, Evan Ray, Bosse, N, Reich, NG, Sherratt, K, Shah, A, Wattanachit, N, Khoale1096, Huang, YD, Gerding, A, Gruson, H, Cramer, E, Shandross, L, Abbott, S and Funk, S (2021). reichlab/covidHubUtils. [Data Collection]. Zenodo. https://doi.org/10.5281/zenodo.5207939

Y

Yakob, L and Nightingale, E (2020). lwyakob/COVIDsaturates. [Data Collection]. Github. https://github.com/lwyakob/COVIDsaturates

This list was generated on Sat Sep 18 02:10:55 2021 BST.