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Welcome to the IBASAM wiki!
IBASAM (Individual Based Atlantic SAlmon Model) is a simulation model, developed with an individual-based demo-genetic structure and integrating a significant amount of knowledge on Salmo salar.
IBASAM is a cohesive and novel tool to assess the effect of potential stressors on evolutionary demography of Atlantic salmon. It includes a demo-genetic structure coupled with the explicit representation of individual variability and complex life histories.
To enhance realism, IBASAM has been developed in the framework of pattern-oriented modelling with multiple patterns validation at population levels using specific data collected over 15 yrs on the Scorff river, France. The genetic transmission of traits is included to allow evolutionary changes in Atlantic salmon life history.
Please see model description for full explanations, graphics of some of the mathematical functions used and code.
The IBASAM model was developed in C++ and interfaced as a shared library for R (R Development Core, 2010) to make easy the statistical analyses of model outputs. The C++ source codes and R scripts to create and use the model as R package are available online on Github. More detailed explanations are provided here:
Contribution guidelines for this project
Piou, C., Taylor, M. H., Papaïx, J., & Prévost, E. (2015). Modelling the interactive effects of selective fishing and environmental change on Atlantic salmon demogenetics. Journal of Applied Ecology, 52(6), 1629-1637. Link
Piou, C., Prévost, E. (2013). Contrasting effects of climate change in continental vs. oceanic environments on population persistence and microevolution of Atlantic salmon. Global Change Biology, 19 (3) : 711-723. Link
Piou, C. & Prévost, E. (2012) A demo-genetic individual-based model for Atlantic salmon populations: Model structure, parameterization and sensitivity. Ecological Modelling, 231, 37–52. Link