General notes (GENERAL)

• Introduction
• How to get started
• How to use WHAT IF.
  • Using menus
  • User interaction
  • Input residue numbers
    • Use the PDB names
    • Residue input via picking
    • Input all residues
    • Input the total soup
    • Input by molecule number
    • Separating between identical molecules with U
    • Separating between identical molecules with S
    • Adressing groups of residues, families
    • Adressing groups of residues, clusters
  • Long input lines and type ahead
  • Command nomenclature
• Graphical items and objects
• Using protons
• Program parameters
• Release of WHAT IF 5.0
• Known bugs
• Overview of the program