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๐ŸงฌSystems Biology Unit 8 Review

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8.1 Agent-based modeling and cellular automata

๐ŸงฌSystems Biology
Unit 8 Review

8.1 Agent-based modeling and cellular automata

Written by the Fiveable Content Team โ€ข Last updated September 2025
Written by the Fiveable Content Team โ€ข Last updated September 2025
๐ŸงฌSystems Biology
Unit & Topic Study Guides

Agent-based modeling and cellular automata are powerful tools for simulating complex systems. They let us create virtual worlds where individual entities interact, following simple rules that lead to unexpected patterns and behaviors.

These techniques help us understand everything from ant colonies to city growth. By tweaking the rules and watching what happens, we can explore how small changes affect big systems without real-world consequences.

Agent-based Models

Fundamental Components and Concepts

  • Agents represent individual entities within a system, possessing unique attributes and behaviors (people, animals, vehicles)
  • Rules govern agent interactions and decision-making processes, defining how agents respond to their environment and other agents
  • Emergent behavior arises from collective agent interactions, producing complex system-level patterns not explicitly programmed
  • Swarm intelligence emerges when simple agents follow local rules, resulting in sophisticated collective behavior (ant colonies, bird flocks)

Implementation and Applications

  • NetLogo serves as a popular programming environment for creating and simulating agent-based models
  • Models diverse scenarios across multiple disciplines (ecology, economics, social sciences)
  • Facilitates exploration of complex systems by adjusting agent parameters and observing outcomes
  • Enables researchers to test hypotheses and predict system behavior under various conditions

Advantages and Limitations

  • Captures individual heterogeneity and autonomy within a system
  • Allows for spatial representation and movement of agents
  • Provides insights into non-linear dynamics and feedback loops
  • Requires careful calibration and validation to ensure model accuracy
  • May become computationally intensive for large-scale simulations with many agents

Cellular Automata

Fundamental Structure and Mechanics

  • Cellular automaton consists of a grid of cells, each existing in a finite number of states
  • States represent the condition or value of a cell at a given time step (alive/dead, on/off)
  • Neighborhood defines the set of adjacent cells that influence a cell's state transition
  • Transition function determines how a cell's state changes based on its current state and the states of its neighbors
  • Discrete space and time characterize cellular automata, with updates occurring in synchronous time steps

Types and Configurations

  • One-dimensional cellular automata arrange cells in a single row or line
  • Two-dimensional cellular automata use a grid or lattice structure (Conway's Game of Life)
  • Three-dimensional and higher-dimensional cellular automata exist for more complex simulations
  • Different neighborhood configurations affect system behavior (von Neumann, Moore neighborhoods)

Applications and Significance

  • Model various physical, biological, and social phenomena (crystal growth, forest fire spread, urban development)
  • Study complex systems and emergent behavior from simple local interactions
  • Explore computational universality and information processing capabilities
  • Contribute to understanding pattern formation and self-organization in nature
  • Inspire developments in artificial life and evolutionary computation