Model to simulate the spread of Mycobacterium avium subsp. paratuberculosis (Map) within and between herds via trade movements between dairy herds

Model to simulate the spread of Mycobacterium avium subsp. paratuberculosis (Map) within and between herds via trade movements between dairy herds. Control measures can be applied: - trade movements rewiring to foster exchanges between herds of the same status (according to within-herd prevalence) (w option) - hygiene, by decreasing calf exposure to bacterial environment (e option) - early culling of high shedders (k option). Model is mechanistic (infection dynamics) and data-driven (movements and demography), stochastic, discrete-time and individual-based. Requirements: C++ compiler: g++ (tested version: 7.2.0) => sudo apt install g++. Warning: standard library C++11 is required. tclap (version 1.2.1): sudo apt install libtclap-dev.