GoFish: A Next-Generation ToolKit for Modeling Migratory Fish and Quantifying Sediment-Bound Contaminant Risk in Estuaries

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GoFish is a modular, open-source behavioral function library for building agent-based models (ABMs) of migratory fish in coastal and estuarine systems. Each function represents a distinct physiological process or behavioral mechanism — metabolism, osmoregulation, contaminant exposure, schooling, migration, predation, and more — documented using the ODD protocol and implemented in NetLogo, R, and Python. The library was developed to support the Penobscot Mercury Exposure Model (P-MEM), a spatially and temporally explicit ABM simulating mercury exposure risk in alewives and striped bass migrating through the Penobscot River Estuary, Maine. It was co-developed with Tribal collaborators, community members, managers, and researchers through a participatory workshop held at the University of Maine on August 6, 2025. If you use GoFish in your research, please cite: Files and Metadata: Quintana, V., Huguenard, K., Zydlewski, G., Dello Russo, J., Zipp, K., & Swannack, T. (2026). GoFish: A next-generation toolkit for modeling migratory fish and quantifying sediment-bound contaminant risk in estuaries (Version 1.0) [Computer software]. Zenodo. https://doi.org/10.5281/zenodo.21209898 Website: Quintana, V., Huguenard, K., Zydlewski, G., Dello Russo, J., Zipp, K., & Swannack, T. (2026). GoFish: A Modular Agent-Based Modeling Toolkit for Migratory Fish. https://vmahan1998.github.io/GoFish/

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