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An essential component of restoration planning in South Florida has been the development and use of computer simulation models for the major physical processes driving the system, notably models for freshwater hydrologic dynamics as it is affected by alternative human control systems and non-controlled inputs such as rainfall. The major objective of the ATLSS (Across Trophic Level System Simulation) Project has been to utilize the outputs of such physical systems models to drive a variety of models that attempt to compare and contrast the relative impacts of alternative hydrologic scenarios on the biotic components of South Florida. The biotic models are constructed at varying levels of spatial, temporal and organismal resolution, and have focused to date on intermediate and upper trophic level biotic components. The essential goal is to provide a rational, scientific basis for developing relative rankings of hydrologic scenarios as input to the planning process, and through this to aid development of appropriate monitoring and adaptive management schemes.