Keller-Segel chemotaxis

Basilisk reaction-diffusion simulations for Keller-Segel chemotaxis and related models (work in progress).

Requirements

• Basilisk source tree (installed locally)
• qcc available in PATH
• Build tools (Xcode CLI on macOS or build-essential on Linux)
• .project_config generated by your local Basilisk install workflow (not tracked here)

Quick start

1. Run a case:
   • ./simulationCases/runCases.sh brusselator
   • ./simulationCases/runCases.sh keller-segel
2. Clean outputs:
   • ./simulationCases/cleanup.sh brusselator
   • ./simulationCases/cleanup.sh keller-segel

Outputs are written to simulationCases/<case>/ and include a copy of the case source.

Cases

• brusselator: reaction-diffusion Brusselator example.
• keller-segel: placeholder, currently configured as the Brusselator example.

Structure

• simulationCases/ case entry points and run scripts
• simulationCases/<case>/ output directories (including legacy outputs)
• src-local/ project-specific headers and helpers
• postProcess/ analysis and plotting utilities
• basilisk/ local Basilisk checkout (not tracked)