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OutbreakTools: a new platform for disease outbreak analysis using the R software.
Jombart T, Aanensen DM, Baguelin M, Birrell P, Cauchemez S, Camacho A, Colijn C, Collins C, Cori A, Didelot X, Fraser C, Frost S, Hens N, Hugues J, Höhle M, Opatowski L, Rambaut A, Ratmann O, Soubeyrand S, Suchard MA, Wallinga J, Ypma R, Ferguson N. Jombart T, et al. Among authors: ferguson n. Epidemics. 2014 Jun;7(100):28-34. doi: 10.1016/j.epidem.2014.04.003. Epub 2014 Apr 18. Epidemics. 2014. PMID: 24928667 Free PMC article.
When are pathogen genome sequences informative of transmission events?
Campbell F, Strang C, Ferguson N, Cori A, Jombart T. Campbell F, et al. Among authors: ferguson n. PLoS Pathog. 2018 Feb 8;14(2):e1006885. doi: 10.1371/journal.ppat.1006885. eCollection 2018 Feb. PLoS Pathog. 2018. PMID: 29420641 Free PMC article.
outbreaker2: a modular platform for outbreak reconstruction.
Campbell F, Didelot X, Fitzjohn R, Ferguson N, Cori A, Jombart T. Campbell F, et al. Among authors: ferguson n. BMC Bioinformatics. 2018 Oct 22;19(Suppl 11):363. doi: 10.1186/s12859-018-2330-z. BMC Bioinformatics. 2018. PMID: 30343663 Free PMC article.
Comparative analysis of the risks of hospitalisation and death associated with SARS-CoV-2 omicron (B.1.1.529) and delta (B.1.617.2) variants in England: a cohort study.
Nyberg T, Ferguson NM, Nash SG, Webster HH, Flaxman S, Andrews N, Hinsley W, Bernal JL, Kall M, Bhatt S, Blomquist P, Zaidi A, Volz E, Aziz NA, Harman K, Funk S, Abbott S; COVID-19 Genomics UK (COG-UK) consortium; Hope R, Charlett A, Chand M, Ghani AC, Seaman SR, Dabrera G, De Angelis D, Presanis AM, Thelwall S. Nyberg T, et al. Among authors: ferguson nm. Lancet. 2022 Apr 2;399(10332):1303-1312. doi: 10.1016/S0140-6736(22)00462-7. Epub 2022 Mar 16. Lancet. 2022. PMID: 35305296 Free PMC article.
917 results