Craig A. Aumann, Lisa A. Eby, and William F. Fagan. 2006. How transient patches affect population dynamics: the case of hypoxia and blue crabs. Ecological Monographs 76:415–438.

Appendix A. A detailed description of the model.

Model Development

• Overview of Model Operation
• Discretization of Estuary to Represent Environment, Habitat and Facilitate Crab Movement
• Generating the Environment Variables
  • Random Field Generation
  • Temperature
  • Bottom Water Salinity
  • Bottom Water Dissolved Oxygen
• Models for Clams and Background Prey
  • Clam Growth Dynamics
  • Clam Mortality
  • Clam Recruitment
  • Background Prey
• Individual-Based Crab Model
  • Crab State Variables
  • Algorithm: Random Crab Updating
  • Algorithm: Interaction and Aggression Outcomes between Crabs
  • Algorithm: Movement
  • Crab Energy Balance: Overview
  • Energy Balance: Foraging and Finding Clams or Background Prey
  • Energy Balance: Ingestion
  • Energy Balance: Egestion
  • Energy Balance: Respiration and Excretion
  • Energy Balance: Movement
  • Energy Balance: Molting
  • Energy Balance: Egg Production and Spawning
  • Rules: Larval Development and Recruitment
  • Rules: Sources of Mortality
• Scaling of the Estuary