Figure 5

Generation of reaction rules from a PIM. In (a) the reaction rule block of the BNGL model generated from the PIM in (b) is depicted. In the PIM shown in (b) node 1 has no incoming edges, as it does not depend on the occurrence of any other process. Hence one reaction rule is generated. Process 2 depends on process 1 and 3 and all combinations have to be considered. Hence, four reaction rules are derived with different reaction context. Process 3 depends only on process 2. Hence, two reaction rules are generated. Process 4 has an incoming all-or-none interaction from process 2, therefore only the case that process 2 has occurred previously has to be considered and the outcome is one reaction rule.