ARCADE v3.1.4

Full Changelog: v2.4...v3.1.4

ARCADE v2.4

This release contains the code associated with the article:

JS Yu & N Bagheri. (2024). Model design choices impact biological insight: Unpacking the broad landscape of spatial-temporal model development decisions. PLoS Computational Biology. doi: 10.1371/journal.pcbi.1011917

Features

• support for rectangular and hexagonal geometry
• add cycle and pulse components
• updated 3D visualization

ARCADE v2.3

This release contains the code associated with the article:

JS Yu & N Bagheri. (2021). Modular microenvironment components reproduce vascular dynamics de novo in a multi-scale agent-based model. Cell Systems. doi: 10.1016/j.cels.2021.05.007

Features

• modular environment components for defining nutrient sources
• realistic vasculature generation and exact hemodynamic calculations
• Gradle build automation

ARCADE v2.2

This release contains the code associated with the article:

JS Yu & N Bagheri. (2020). Agent-based models predict emergent behavior of heterogeneous cell populations in dynamic microenvironments. Frontiers in Bioengineering and Biotechnology. doi: 10.3389/fbioe.2020.00249

Features

• application and command line interface for running simulations
• XML-based simulation setup files
• custom interface structure for modular, extensible biological models