Kendrick

DSL and Simulation Plarform for Epidemiology Modeling
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Kendrick provides an embedded Domain-Specific Language and a Simulation Plaform for mathematical epidemiology modeling. It helps epidemiologists craft custom analyses cheaply. It's based on Pharo and it's open source under MIT licence. Classes of epidemic model include deterministic compartmental models, stochastic individual contact models, and individual-based network models.

Kendrick is based extensively on several Pharo ecosystem tools including PetitParser and Roassal visualization engine.

Citation

If you are using Kendrick for research, please cite our work as:

Mai Anh BUI T., Nick Papoulias, Serge Stinckwich, Mikal Ziane & Benjamin Roche (2019), The Kendrick modelling platform: language abstractions and tools for epidemiology, BMC Bioinformatics volume 20, Article number: 312 URL: https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-019-2843-0

Documentation

You will find documentation about Kendrick meta-model and DSL here: https://github.com/KendrickOrg/kendrick/blob/master/documentation/meta-model/meta-modelv3.org

A previous version of Kendrick is also described in a chapter of the Agile Visualization book.

How to install the development version of Kendrick from github

• Download Pharo 10.0 VM depending of your platform: http://pharo.org/download
• Load Kendrick: Open Pharo 10.0 image then right-click anywhere to open the main menu. Choose Playground to execute script. Paste the script below in Playground, select all then right-click and choose Do it to execute this.
• You need first to update the Iceberg version in your image. See CONTRIBUTING.md for more details.

Metacello new
        repository: 'github://KendrickOrg/kendrick';
        baseline: 'Kendrick';
        onWarningLog ;
        load