Snoopy hybrid simulator

Snoopy hybrid simulator simulates biochemical reaction networks by constructing and executing (coloured) hybrid Petri nets and hybrid stochastic–deterministic algorithms to capture fast and slow dynamics in systems biology.

Key Features:

• Hybrid Simulation Capabilities: Combines stochastic and deterministic approaches to model biochemical networks with concurrent fast and slow time scales.
• State-of-the-Art Algorithms: Provides a suite of hybrid simulation algorithms for efficient handling of complex hybrid models.
• Graphical Notation Support: Supports construction using (coloured) hybrid Petri nets and import from SBML (Systems Biology Markup Language).
• Dynamic and Static Simulation Options: Supports both dynamic (time-course) and static hybrid simulation modes.

Scientific Applications:

• Systems Biology: Enables modeling and analysis of complex biochemical reaction networks in systems biology.
• Multi-scale Modeling: Facilitates study of multi-scale biological processes by capturing stochastic fluctuations and deterministic trends.
• Cellular Mechanism Analysis: Supports investigation of cellular mechanisms by simulating interactions across molecular components.
• Drug Interaction Modeling: Can be applied to explore molecular-level drug interactions.

Methodology:

Builds on Snoopy's Petri net framework by constructing (coloured) hybrid Petri nets and applying hybrid simulation algorithms that combine stochastic and deterministic methods.