adding System bio simulation capability #41
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… inside a general CellAgent
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The code changes involve adding a new file called
systembio.jland updating theProject.tomlfile to include additional dependencies.The
systembio.jlfile introduces a heterogeneous cell system example using a Petri Net and DifferentialEquations.jl. The file defines multiple types of cells (NormalCellA, NormalCellB, CancerCellA, CancerCellB) and a CellAgent struct that contains a DiffEqAgent for representing the dynamical state of a cell. It also defines helper functions for creating DiffEqAgents and CellAgents, simulating the dynamical state of cells, and performing transitions in the Petri Net.These changes address the need for a system biology example to model and simulate the behavior of different types of cells with different dynamic states. Using DifferentialEquations.jl and Petri nets, the code provides a framework for studying the cell interactions and their dynamic behavior. The added dependencies enable the code to achieve this functionality by providing the necessary packages for simulation, data manipulation, and visualization.