A modular Bayesian framework for inferring transmission networks from polyclonal infections, with application to Plasmodium falciparum (opens in new tab)

Motivation: Molecular surveillance and infectious disease transmission network reconstruction can provide compelling evidence for estimating public-health quantities that are difficult to observe directly, including importation, source-sink structure, and differences in onward transmission across locations or intervention strata. These quantities can be expressed as functions of the underlying transmission network, but individual transmission events are rarely observed and many networks may b...