Biocellion

Biocellion provides a high-performance parallel computing framework for simulating multicellular biological systems using discrete agent-based models to represent cell–cell and cell–environment interactions at high resolution.

Key Features:

• Parallel computing capabilities: Leverages high-performance parallel computing to manage large-scale simulations and distribute computational workload across multiple processors.
• Discrete agent-based modeling support: Implements detailed agent-based representations of individual cells and their interactions with the environment for high-resolution simulation.
• Modular model customization: Allows users to implement model specifics by providing user-defined function bodies and modular components to tailor biological behaviors.
• Applied case studies: Has been applied to simulate cell sorting, microbial patterning, and bacterial systems within soil aggregates.

Scientific Applications:

• Developmental biology: Simulation of cell sorting and multicellular pattern formation to study developmental processes.
• Microbiology: Modeling microbial patterning and interactions among microbial populations.
• Soil and environmental microbiology: Simulation of bacterial systems within soil aggregates to study microbial ecology in heterogeneous environments.

Methodology:

Integration of discrete agent-based models with high-performance parallel computing by distributing computational tasks across multiple processors, with model behavior defined via pre-defined function bodies.