medRxiv preprint doi: https://doi.org/10.1101/2020.12.15.20248246; this version posted December 16, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted medRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC-ND 4.0 International license . JUNE open-source individual-based epidemiology simulation Joseph Bullock1,2,*, Carolina Cuesta-Lazaro1,3,*, Arnau Quera-Bofarull1,3,*, Miguel Icaza-Lizaola1,3,**, Aidan Sedgewick1,4,**, Henry Truong1,2,**, Aoife Curran1,3, Edward Elliott1,3, Tristan Caulfield7, Kevin Fong8,9, Ian Vernon1,6, Julian Williams5, Richard Bower1,3, and Frank Krauss1,2,+ 1 Institute for Data Science, Durham University, Durham DH1 3LE, UK 2Institute for Particle Physics Phenomenology, Durham University, Durham DH1 3LE, UK 3Institute for Computational Cosmology, Durham University, Durham DH1 3LE, UK 4Centre for Extragalactic Astronomy, Durham University, Durham DH1 3LE, UK 5Institute for Hazard, Risk & Resilience, Durham University, Durham DH1 3LE, UK 6Department of Mathematical Sciences, Durham University, Durham DH1 3LE, UK 7Department of Computer Science, University College of London, London WC1E 6BT, UK 8Department of Science, Technology, Engineering and Public Policy, University College London, London WC1E 6BT, UK 9Department of Anaesthesia, University College London Hospital, London NW1 2BU, UK *Equal contribution **Equal contribution +Corresponding author:
[email protected] Abstract: We introduce JUNE, an open-source framework for the detailed simulation of epi- demics on the basis of social interactions in a virtual population constructed from geographically granular census data, reflecting age, sex, ethnicity, and socio-economic indicators.