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*](http://www.fishbase.se/summary/Salmo-salar.html). 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.
-**What is IBASAM’ goal?**
# What is IBASAM’ goal?
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.
-**How does IBASAM work?**
# How does IBASAM work?
Please see [model description](ibasam) for full explanations, graphics of some of the mathematical functions used and code.
@@ -30,7 +30,7 @@ It also includes 1 submodel to simulate impact of fishing and 2 environmental su
-**How to use IBASAM?**
# How to use IBASAM?
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:
@@ -38,7 +38,7 @@ The IBASAM model was developed in C++ and interfaced as a shared library for R (
[How to Use](howtouse)
-**How to contribute to IBASAM?**
# How to contribute to IBASAM?
[Contribution guidelines for this project](docs/CONTRIBUTING.md)
@@ -46,8 +46,7 @@ The IBASAM model was developed in C++ and interfaced as a shared library for R (
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](http://onlinelibrary.wiley.com/doi/10.1111/1365-2664.12512/abstract)
@@ -56,7 +55,6 @@ Piou, C., Prévost, E. (2013). Contrasting effects of climate change in continen
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](http://www.sciencedirect.com/science/article/pii/S0304380012000543)
This project is licensed under the terms of the GNU General Public License GPLV3.0.