An open source tool to infer epidemiological and immunological dynamics from serological data: serosolver
Fig 2
Inputs and outputs for the serosolver R package.
Users input the serological data to be fitted, an antigenic map if considering an antigenically variable pathogen, the infection history prior and any priors on the antibody kinetics parameters. These inputs feed into the process model that can either be used to simulate data by itself, or combined with observed data and MCMC to obtain three posterior outputs: individual-level infection histories, population probabilities of infection, and antibody kinetics parameters. Once these posteriors have been obtained, serosolver can run MCMC diagnostics and plot key immunological and epidemiological processes.