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Gillespie simulation

Wile synchronous simulation is straightforward to understand and code, we can manipulate the mathematical description of the simulation probabilities to generate a much more efficient simulation dynamics, known as stochastic or Gillespie simulation. This is far more efficient, more statistically exact, and is generally the method used where possible.

(This is a chapter from Complex networks, complex processes.)

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Synchronous simulation

The simplest way to simulate an epidemic from a computing perspective is to adopt a discrete time model. We tie this together with our compartmented models from earlier to create a simulator for SIR.

(This is a chapter from Complex networks, complex processes.)

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Epidemic simulation

Before we go any further, let’s pause to think about the general theme of computer simulation. This is a huge topic, but some of the common themes, ideas, and terms are essential to understanding how to simulate an epidemic — and equally importantly, to make some of the decisions that need to be made.

(This is a chapter from Complex networks, complex processes.)

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