The central question is whether sequence data for respiratory viruses sampled at a range of social organisational levels within a country can identify pathways of transmission that suggest particular intervention designs? Using an established framework across Kenya to sample for a variety of medically important respiratory viruses the following will be addressed:
(A) Can transmission pathways be mapped across social organisation levels using whole genome sequence (WGS) data?
(B) What new insight will knowledge of transmission structure provide for the design of intervention programmes?