Miscellaneous Tutorials

Miscellaneous Tutorials

• VMD Basics for Visualization
  • Learning objectives
  • Tutorial
    • 1.1 VMD Overview
    • 1.2 How to Access VMD
    • 1.3 VMD Basics
    • 1.4 Customizing Representations
    • 1.5 Measuring Geometrical Properties
    • 1.6 Keywords and Aligning
    • 1.7 Calculating Root-Mean-Square Deviation (RMSD)
    • 1.8 Image Rendering
• Introduction to CPPTRAJ
  • Learning objectives
  • Tutorial
    • 2.1 Introduction to CPPTRAJ
    • 2.2 Wrapping Trajectories
    • 2.3 Trajectory Time Series and Distribution Analysis
    • 2.4 Computing Average Structures and Fluctuations
• AMBER and Molecular Simulation File Formats
  • Overview Table
  • Notes on Usage