Engineering Simulations as Scientific Instruments: A Pattern Language: With Kieran Alden, Paul S. An

Part I, Overview of the CoSMoS Approach.- CoSMoS: Rationale and Concepts.- What's In It for Me?.- The CoSMoS Approach in Miniature.- Part II, The Core CoSMoS Pattern Language.- The CoSMoS Simulation Pattern.- Discovery Phase Patterns: Building the Domain Model.- Development Phase Patterns: Developing the Platform.- Exploration Phase Patterns: Using the Platform.- Structured Argumentation Patterns.- Part III, The CoSMoS Helper Patterns.- Modelling and Documentation Patterns.- Real-World Simulation Patterns.- Part IV, CellBranch Case Study.- Introduction to the CellBranch Simulation.- CellBranch: Increment 1: Single Transcription Factor.- CellBranch: Increment 1: Discovery Phase.- CellBranch: Increment 1: Development Phase.- CellBranch: Increment 1: Exploration Phase.- CellBranch: Increment 2: Multiple Transcription Factors.- CellBranch: Increment 2: Discovery Phase.- CellBranch: Increment 2: Development Phase.- CellBranch: Increment 2: Exploration Phase.- CellBranch: Lessons and Code.