1. Guides

• 1.1. Functions
  • 1.1.1. Retrieving metabolic pathway information
  • 1.1.2. Converting stored-data into COBRApy objects
  • 1.1.3. Adding metabolites
  • 1.1.4. Adding reactions
  • 1.1.5. Adding pathways
  • 1.1.6. Non-zero flux test
  • 1.1.7. Curation process
  • 1.1.8. Converting COBRApy groups back to CobraMod pathways
• 1.2. Removing elements using COBRApy
  • 1.2.1. Removal of reactions/metabolites
  • 1.2.2. Removal of pathways/groups
• 1.3. Using Git to track changes and using Memote
• 1.4. Using the automatic cross-reference expansion
  • 1.4.1. The internal cross-referencing procedure
  • 1.4.2. Caching
    • 1.4.2.1. Extending the annotations of different CobraPy objects.
  • 1.4.3. Metabolite
  • 1.4.4. Reaction
  • 1.4.5. Model