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Welcome to the EpiFusion wiki! This is a living document which will grow as we add improvements to the program, but for now it contains instructions on how to get started.
You can compile EpiFusion from source by cloning this repository and building the program within a java IDE, however this is unnecessarily complex, as we have executable files available on the releases page and these are much more stable. Better to download the latest release and place it into wherever folder you wish to call it from. We'll include more specific instructions on this in the 'Installation' section.
When you have your EpiFusion XML assembled, you can run the program (provided you have Java 8 installed) with the following command.
java -jar EpiFusion.jar parameterfilename.xml
EpiFusion is a program for implementing a joint inference infrastructure for modelling epidemic trajectories using particle filtering.