1. Foreword
2. 1. Running AEON
3. 2. AEON Compute Engine
4. 3. Model Editor
5. 1. 3.1. Variables and regulations
   2. 3.2. Model panel and update functions
   3. 3.3. Parametrised networks
   4. 3.4. Regulatory graph properties
   5. 3.5. Import/Export
6. 4. Attractor Bifurcation
7. 1. 4.1. State space explorer
   2. 4.2. Bifurcation decision trees
   3. 4.3. Stability analysis
8. 5. Control
9. 1. 5.1. Setting Control Parameters
   2. 1. 5.1.1. Control-Enabled Editor
      2. 5.1.2. Phenotype Editor
      3. 5.1.3. Setting of Control Parameters with Model Editor
      4. 5.1.4. Limiting the Control Computation
   3. 5.2. Control Results
   4. 1. 5.2.1. Perturbation Table
      2. 5.2.2. Export of Control Results
   5. 5.3. Control Demonstration
10. 6. Tab System
11. 7. Building AEON