Command Line Interface

• Overview
  • Configuration Files
• process command
  • Arguments
  • Examples
• measure command
  • Arguments
  • Atom Selectors and Filters
  • Examples
  • Approach to Secondary Structure Assignments
• hbonds command
  • Arguments
  • Examples
  • Theory
• pa command
  • Arguments
  • Partial Alignment Data File Format
  • Examples
  • Tensor Conventions
• Configuration Options