Item Type No Grouping

SoCFourier. (2021) Silver, Matt description

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

migariane/BayesVarImpComorbiCancer. (2021) Rubio, Francisco Javier, Alvares, Danilo, Redondo-Sanchez, Daniel, Luque-fernandez, Miguel Angel

lshtm-tbmg/natcomms-m72sa: Nat Comms - code. (2021) Harris, Rebecca C, Quaife, Matthew, Weerasuriya, Chathika Krishan, Gomez, Gabriela B, Sumner, Tom, Bozzani, Fiammetta, White, Richard G

liang-yu12/vd_covid. (2021) Lin, Liang Yu

Extended Data: Iron supplementation of breastfed Gambian infants from 6 weeks to 6 months of age: Protocol for a randomised controlled trial. (2021) Stelle, Isabella, Bah, Mamadou, Silverio, Sergio A., Verhoef, Hans, Comma, Ebrima, Prentice, Andrew M., Moore, Sophie E., Cerami, Carla

jarvisc1/2020-reporting. (2021) Jarvis, Christopher I., Jombart, Thibaut

epiforecasts/forecast.vocs. (2021) Abbott, Sam, Bracher, Johannes

Chjulian/sheffield_HT: Characterising within-hospital SARS-CoV-2 transmission events. (2021) Lindsey, Benjamin B., Villabona-Arenas, Christian Julian, Atkins, Katherine E., Campbell, Finlay

r-spatialecology/shar. (2021) Hesselbarth, Maximilian, actions-user, Sciaini, Marco, Hereñú, Darío, Gruson, Hugo, Etherington, Thomas

Dataset and R code for article "Topical emollient therapy with sunflower seed oil alters the skin microbiota of young children with severe acute malnutrition in Bangladesh: a randomised, controlled study". (2021) Fischer, Natalie, Darmstadt, Gary L, Shahunja, KM, Crowther, Jonathan M, Kendall, Lindsay, Gibson, Rachel A, Ahmed, Tahmeed, Relman, David A

epiforecasts/epinowcast. (2021) Abbott, Sam, Monticone, Pietro

rmjlros/COVID19_care_home_NPIs. (2021) Rosello, Alicia, Abbott, Sam, Barnard, Rosanna C.

PierreMasselot/Paper--2021--JRSS_SA--Machine_Learning_Thresholds. (2021) Masselot, Pierre

STATA Do files for "Factors associated with excess mortality in the first wave of COVID-19 pandemic in the UK: a cohort analysis using the Clinical Practice Research Databank". (2021) Strongman, Helen, Carreira, Helena folder_zip

hamishgibbs/ghana_rt_npi_mobility. (2021) Gibbs, Hamish

Paul-Mee/clic_brazil. (2021) Mee, Paul, Alexander, Neal, Colón-González, Felipe J

Decision Modelling for Health Economic Evaluation R Code. (2021) Williams, Jack, Naylor, Nichola, Briggs, Andrew

nfadai/Clements2021. (2021) Clements, Alastair J, Fadai, Nabil T

lshtm-vimc/dynamice. (2021) Fu, Han, Abbas, Kaja M.

mbkoltai/covid_lmic_model: Model fitting excess mortality data in Mogadishu v1.0. (2021) Koltai, Mihaly

francescochecchi/mortality_small_area_estimation. (2021) Checchi, Francesco, Testa, Adrienne, Gimma, Amy, Koum-Besson, Emilie, Warsame, Abdihamid

ropensci/drake. (2021) Landau, Will, Landau, Will, Bond-Lamberty, Ben, Strasiotto, Matthew, McBain, Miles, Müller, Kirill, Mahr, TJ, Hughes, Ellis, Ross, Noam, Bell, Kendon, Ingerson, Sean, Aden-Buie, Garrick, Gomolka, Matthias, Knoblauch, Nicholas, Albers, Sam, brendanf, evalparse, Denney, Bill, Muir, Chris, Barrett, Malcolm, Krug, Rainer M, Kehayas, Vassilis, Schratz, Patrick, Zhao, Bruce, Hlynur, Gruson, Hugo, Jasper, Ooms, Jeroen, Walthert, Lorenz, Dray, Matt

d-mayerova/Vaccine_confidence_Albania. (2021) Mayerová, Daniela, Abbas, Kaja M.

o2geosocial: Reconstruction of Transmission Chains from Surveillance Data. (2021) Robert, Alexis, Funk, Sebastian, Kucharski, Adam J., Jombart, Thibaut

cmmid/coronavirus_immunity. (2021) Waterlow, Naomi R., Van Leeuwen, Edwin, Davies, Nicholas, Flasche, Stefan, Eggo, Rosalind M.

petedodd/NotTB. (2021) Dodd, Peter J

Results of the Web-Delphi process to INAMI stakeholders (three rounds). (2021) Oliveira, Mónica Duarte, Dimitrovová, Klára, Angelis, Aris, Kanavos, Panos, Bana e Costa, Carlos

NickyMcC/CasualAgeMixing. (2021) Mccreesh, Nicky

Results of the Web-Delphi process to YLV stakeholders (three rounds). (2021) Oliveira, Mónica Duarte, Dimitrovová, Klára, Angelis, Aris, Kanavos, Panos, Bana e Costa, Carlos

Analysis of non-communicable disease reports contributing to UN high-level meeting process (2000-2020). (2021) Millington, James, Okpako, Oritsematosan, Herrick, Clare

MatchThem: Matching and Weighting Multiply Imputed Datasets. (2021) Pishgar, Farhad, Greifer, Noah, Leyrat, Clemence, Stuart, Elizabeth

rachaelpung/serial_interval_covid_b.1.617.2. (2021) Pung, Rachael

fsera/COVIDWeather. (2021) Sera, Francesco, Abbott, Sam, Roye, Dominic

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

DidDrog11/smoking_covid_bayes. (2021) Simons, David

LSHTM-ORK/ODK_Biometrics. (2021) Roberts, Chrissy, Stott, Callum

Code to replicate "Quantifying impacts of the COVID-19 pandemic through life expectancy losses". (2021) Aburto, José Manuel, Schöley, Jonas, Kashnitsky, Ilya, Knowles, Ian, Zhang, Luyin, Rahal, Charles, Missov, Trifon I, Dowd, Jennifer B, Mills, Melinda C, Kashyap, Ridhi

Global intent to accept COVID-19 vaccines. (2021) De Figueiredo, Alex

tomsumner/CORTIS_HR_CE. (2021) Sumner, Tom

Software and results for: An agent-based model for simulating the impact of social norms on active commuting interventions. (2021) Greener, Robert, Lewis, Daniel, Reades, Jon, Miles, Simon, Cummins, Steven

KamTan/MediationSimulation. (2021) Tanner, Kamaryn T, Sharples, Linda D, Daniel, Rhian M, Keogh, Ruth H

gwenknight/hai_first_wave. (2021) Knight, Gwen

lwyakob/COVIDquarantine. (2021) Yakob, Laith

nicholasdavies/amr-competition-diversity: Full release for publication. (2021) Davies, Nicholas G.

mexhaz: Mixed Effect Excess Hazard Models. (2021) Charvat, Hadrien, Belot, Aurélien

Analysis for: The changing relationship between genetic risk and cognitive decline across birth cohorts. (2021) Courtin, Emilie, Greener, Robert, Weiss, Jordan, Ware, Erin B., Dowd, Jennifer B., Rehkopf, David

Optimising health and economic impacts of COVID-19 vaccine rollout strategies in the WHO European Region. (2021) Liu, Yang, Sandmann, Frank G., Barnard, Rosanna C., Pearson, Carl A.B., CMMID Working-19 Working Group, Pastore, Roberta, Pebody, Richard, Flasche, Stefan, Jit, Mark

katholt/srst2. (2021) Inouye, Michael, Dashnow, Harriet, Pope, Bernie, Wick, Ryan, Holt, Kathryn E.

Methods and Code. (2021) Castaneda-Guzman, Mariana, Mantilla-Saltos, Gabriel, Murray, Kris A., Settlage, Robert, Escobar, Luis E

PierreMasselot/emdr. (2021) Masselot, Pierre

nikosbosse/mirmeth: Alpha version. (2021) Bosse, Nikos

cmmid/covid_quar_test_import_risk. (2021) Quilty, Billy

qleclerc/COVID_bed_occupancy. (2021) Leclerc, Quentin J.

rachaelmburke/hivhospital. (2021) Burke, Rachael

t-pollington/developments_tau_statistic. (2021) Pollington, Timothy M, Tildesley, Michael J, Hollingsworth, T Déirdre, Chapman, Lloyd A. C.

Additional file 1 of A framework for handling missing accelerometer outcome data in trials. (2021) Tackney, Mia S., Cook, Derek G., Stahl, Daniel, Ismail, Khalida, Williamson, Elizabeth, Carpenter, James

BugBunny/oRphanhood. (2021) Timaeus, Ian

kieshaprem/nsum: Release of NSUM codes version 1.0. (2021) Prem, Kiesha

kieshaprem/synthetic-contact-matrices. (2021) Prem, Kiesha

anavica/mcc_ccattr_NCC. (2021) Vicedo-Cabrera, A. M., Gasparrini, Antonio, Royé, Dominic

mauzenbergs/polio_vdpv. (2021) Auzenbergs, Megan, Fountain, Holly, Macklin, Grace, Lyons, Hil, O'reilly, Kathleen M.

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.

R code for the paper "Probabilistic seasonal dengue forecasting in Vietnam: A modelling study using superensembles". (2021) Colón-González, Felipe J., Soares Bastos, Leonardo, Hofmann, Barbara, Hopkin, Alison, Harpham, Quillon, Crocker, Tom, Amato, Rosanna, Ferrario, Iacopo, Moschini, Francesca, James, Samuel, Malde, Sajni, Ainscoe, Eleanor, Sinh Nam, Vu, Quang Tan, Dang, Duc Khoa, Nguyen, Harrison, Mark, Tsarouchi, Gina, Lumbroso, Darren, Brady, Oliver J., Lowe, Rachel

BayesSUR: Bayesian Seemingly Unrelated Regression. (2021) Banterle, Marco, Zhao, Zhi, Bottolo, Leonardo, Richardson, Sylvia, Leoncio, Waldir, Lewin, Alexandra, Zucknick, Manuela, Zhao, Zhi

cmmid/uk_movement_communities_covid. (2021) Gibbs, Hamish

johntaz/HDPS-Diagnostics. (2021) Tazare, John

cmmid/covidTestVac. (2021) Pearson, Carl A. B.

Datasets and code for "Mapping the plague through natural language processing". (2021) Krauer, Fabienne, Schmid, Boris V.

Data and R code to accompany 'Spatial connectivity in mosquito-borne disease models: a systematic review of methods and assumptions'. (2021) Lee, Sophie A.

ojal/KenyaSerology. (2021) Brand, Samuel, Ojal, John

rachaelmburke/tbcovidblantyre. (2021) Burke, Rachael

Additional file 2 of Comparative diagnostic accuracy studies with an imperfect reference standard – a comparison of correction methods. (2021) Umemneku Chikere, Chinyereugo M, Wilson, Kevin J, Allen, A Joy, Vale, Luke

Eyedeet/Systematic_review. (2021) Suffel, Anne Marie

TheYongjinChoi/NYS-COVID19-Disparities-Survey. (2021) Fox, Ashley, Choi, Yongjin

cmmid/quar_test_contact_tracing. (2021) Quilty, Billy

NickyMcC/WithinClinics. (2021) McCreesh, Nicky

knowah/bssnper2. (2021) Kessler, Noah J.

CEmimix ADO file. (2021) Leurent, Baptiste, Cro, Suzie

erees/seasonalHCoV. (2021) Rees, Eleanor

katholt/sonneityping: v20210201. (2021) Holt, Kathryn E., Hawkey, Jane, Paranagama, Kalani

R code for: "Confirmatory testing with a second lateral flow test may mitigate false positives at low levels of SARS-CoV-2 prevalence in English schools". (2021) Quilty, Billy J, Hellewell, Joel, Clifford, Samuel, CMMID COVID-19 working group description

Data for: "Estimating force of infection from serologic surveys with imperfect tests". (2021) Alexander, Neal, Carabali, Mabel, Lim, Jacqueline K.

Increased mortality in community-tested cases of SARS-CoV-2 lineage B.1.1.7. (2021) Davies, Nicholas G., Jarvis, Christopher I., CMMID COVID-19 Working Group, Edmunds, W. John, Jewell, Nicholas P., Diaz-Ordaz, Karla, Keogh, Ruth H.

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

Country Level COVID-19 Vaccination Prioritisation Decision Support Tool for WHO EUR. (2021) Liu, Yang, Sandmann, Frank, Barnard, Rosanna C., Pearson, Carl A. B., LSHTM CMMID COVID-19 Working Group, Davies, Nicholas G., Jit, Mark

jdmunday/SchoolHouseholdNetworksCOVID: Initial release. (2021) Munday, James D.

jdmunday/CoMix_schools_reopening. (2021) Munday, James D., Jarvis, Christopher I.

LloydChapman/COVID_homeless_modelling. (2021) Chapman, Lloyd A. C.

PierreMasselot/primr. (2021) Masselot, Pierre

jarvisc1/comix_uk_covid_restrictions. (2021) Jarvis, Christopher

Code for: "Socioeconomic inequalities in the quality of primary care under Brazil’s national pay-for-performance programme: a longitudinal study of family health teams". (2021) Powell-Jackson, Timothy, Kovacs, Roxanne, Borghi, Josephine description

S1 File for "Multi-criteria suitability analysis for neglected and underutilised crop species in South Africa". (2021) Mugiyo, Hillary, Chimonyo, Vimbayi G P, Sibanda, Mbulisi, Kunz, Richard, Nhamo, Luxon, Masemola, Cecelia R, Dalin, Caroline, Modi, Albert T, Mabhaudhi, Tafadzwa

epiforecasts/covid19.nhs.data: Initial release. (2021) Abbott, Sam, Meakin, Sophie

opensafely/covid-vs-noncovid-deaths-research. (2021) Bhaskaran, Krishnan, Inglesby, Peter

cmmid/SA2UK. (2021) Pearson, Carl A. B., Russell, Timothy W., Kucharski, Adam J.

supingling/glycaemic-control. (2021) Ling, Suping

uk_tier_data. (2021) Gibbs, Hamish, Jarvis, Christopher I., Eggo, Rosalind M.

WINRATIOTEST: Stata module to calculate the unmatched Win Ratio for prioritised outcomes. (2021) Gregson, John, Collier, Timothy