In Chapter 6 an algorithm for simulating the time-course behaviour of a stochastic kinetic model was introduced. This discrete-event simulation algorithm, usually referred to as the Gillespie algorithm, has the nice properties that it simulates every reaction event and is exact in the sense that it generates exact independent realisations of the underlying stochastic kinetic model. It is also reasonably efficient in terms of computation time among all such algorithms with those properties. However, it should be emphasised that the Gillespie algorithm is just one approach out of many that could be taken to simulating stochastic biochemical dynamics. In this chapter we will look at some ...
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