SANTA is JAVA software application that simulates the evolution of a population of gene sequences forwards through time. It models the underlying biological processes as discrete components; replication (including recombination), mutation (including indels), fitness and selection. SANTA is easy to use and is well-suited to simulate pathogen evolution according to different scenarios.
A pre-built cross-platform executable jar file (santa.jar) for SANTA-SIM v1.0 is available at the Releases page.
To download and build the project from source code, please execute the following command:
git clone https://github.com/santa-dev/santa-sim
ant
Detailed information on how to use SANTA is available at the wiki page. Several example simulation configuration files (.xml) are inside the examples directory.