SimInf

A flexible and efficient framework for data-driven stochastic disease spread simulations

Livestock movements are important for the spread of many infectious diseases between herds. The package provides an efficient and flexible framework for data-driven stochastic disease spread modelling that integrates within-herd infection dynamics as continuous-time Markov chains and livestock movements between herds as scheduled events. The core simulation solver is implemented in C and uses OpenMP (if available) to divide work over multiple processors. The package contains template models and can be extended with user defined models.

Authors


The SimInf software has been made possible by support from the Swedish Research Council within the UPMARC Linnaeus centre of Excellence (Pavol Bauer, Robin Eriksson and Stefan Engblom), the Swedish Research Council Formas (Stefan Engblom and Stefan Widgren), the Swedish Board of Agriculture (Stefan Widgren), and by the Swedish strategic research program eSSENCE (Stefan Widgren).