Published September 18, 2023 | Version v1
Dataset Open

Data for: A catalytic model for SARS-CoV-2 reinfections: Performing simulation-based validation and extending the model to include nth infections

Authors/Creators

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

Contributors

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

Description

For code and more details see: 

  • inf_for_sbv.RDS - simluated timeseries of primary infections used in the simulation-based validation of reinfections. 
  • inf_for_sbv_third.RDS - simluated timeseries of primary infections used in the simulation-based validation of third infections. 
  • 3_posterior_90_null_correctdata.RData - posterior samples from the MCMC fitting procedure (as used in the manuscript) when not considering a second lambda parameter (to third infections)
  • 3_posterior_90_null_l2_correctdata.RData - posterior samples from the MCMC fitting procedure (as used in the manuscript) when considering a second lambda parameter (to third infections)
  • 3_sim_90_null_correctdata.RDS - simulation results when not considering a second lambda parameter for third infections (as used in the manuscript)
  • 3_sim_90_null_l2_correctdata.RDS - simulation results when considering a second lambda parameter for third infections (as used in the manuscript)

 

Files

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Additional details

Related works

Is supplement to
Dataset: https://zenodo.org/record/7426515 (URL)

Funding

Wellcome Trust
Characterization of SARS-CoV-2 transmission dynamics, clinical features and disease impact in South Africa, a setting with high HIV prevalence 221003

References

  • Pulliam JRC, van Schalkwyk C, Govender N, von Gottberg A, Cohen C, Groome MJ, Dushoff J, Mlisana K, Moultrie H. Increased risk of SARS-CoV-2 reinfection associated with emergence of Omicron in South Africa. Science. 2022 May 6;376(6593):eabn4947. doi: 10.1126/science.abn4947. Epub 2022 May 6. PMID: 35289632; PMCID: PMC8995029.