Mapping use cases to core analysis functionalities

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For the eight use cases, we identified distinct analysis functionalities that are required or useful to obtain the desired results from Plasmodium genetic data (as well as contextual data, eg epidemiological variables, travel history). Some of them are required for several use cases, for example, estimating complexity of infection (COI) is required or useful for all, which makes intuitive sense since analysis of genetic data from monoclonal infections will often need to be treated differently than that from polyclonal infections.

The table below shows analysis functionalities required for each use case (denoted with X’s).