Estimating the time-varying reproduction number for COVID-19 in South Africa during the first four waves using multiple measures of incidence for public and private sectors across four waves

• Jeremy Bingham ,

  Roles Conceptualization, Methodology, Software, Visualization, Writing – original draft, Writing – review & editing

  * E-mail: jeremyb@sun.ac.za

  Affiliation South African DSI-NRF Centre of Excellence in Epidemiological Modelling and Analysis (SACEMA), Stellenbosch University, Stellenbosch, South Africa

  https://orcid.org/0000-0002-0523-9518

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• Stefano Tempia,

  Roles Conceptualization, Methodology, Writing – review & editing

  Affiliations Centre for Respiratory Diseases and Meningitis, National Institute for Communicable Diseases of the National Health Laboratory Service, Johannesburg, South Africa, School of Public Health, University of the Witwatersrand, Johannesburg, South Africa

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• Harry Moultrie,

  Roles Conceptualization, Data curation, Methodology, Supervision, Writing – review & editing

  Affiliations Division of the National Health Laboratory Service, Centre for Tuberculosis, National Institute for Communicable Diseases, Johannesburg, South Africa, School of Pathology, Faculty of Health Sciences, University of the Witwatersrand, Johannesburg, South Africa

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• Cecile Viboud,

  Roles Methodology, Writing – review & editing

  Affiliation Fogarty International Center, NIH, Bethesda, MD, United States of America

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• Waasila Jassat,

  Roles Data curation, Writing – review & editing

  Affiliations Division of Public Health Surveillance and Response, National Institute for Communicable Diseases, National Health Laboratory Service, Johannesburg, South Africa, Right to Care, Pretoria, South Africa

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• Cheryl Cohen ,

  Roles Conceptualization, Funding acquisition, Methodology, Project administration, Supervision, Writing – original draft, Writing – review & editing

  ¶‡ CC and JRCP are Co-senior authors on this work.

  Affiliations Centre for Respiratory Diseases and Meningitis, National Institute for Communicable Diseases of the National Health Laboratory Service, Johannesburg, South Africa, School of Public Health, University of the Witwatersrand, Johannesburg, South Africa

  https://orcid.org/0000-0003-0376-2302

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• Juliet R.C. Pulliam

  Roles Conceptualization, Methodology, Software, Supervision, Writing – original draft, Writing – review & editing

  ¶‡ CC and JRCP are Co-senior authors on this work.

  Affiliation South African DSI-NRF Centre of Excellence in Epidemiological Modelling and Analysis (SACEMA), Stellenbosch University, Stellenbosch, South Africa

  https://orcid.org/0000-0003-3314-8223

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