MD DaVis

MD DaVis is a tool and Python 3 package to easily create helpful interactive visualizations to analyze and compare multiple molecular dynamics simulations of proteins.

Documentation

• Introduction
  • Features of MD DaVis
  • Interfacing MD DaVis to Other Analysis Tools
  • Molecular Dynamics Analysis Tools
• Install
  • System Requirements
  • Installation Instructions
  • Installation for Development
  • External Dependencies
• Uninstall
• User Guide
  • Quickstart
  • Plotting Xmgrace (.xvg) Files
  • Sequence
  • Collate Analysis Data
  • HDF Files
  • Free Energy Landscapes
  • Surface Electrostatic Potential Per Residue
  • Electric Field Dynamics
  • Residue Property Plot
  • Contact/H-bond matrix
  • Contributing
  • History
• Tutorials
  • Acylphosphatase Homologs
  • Sickle and Normal Oxyhemoglobin
• GUI
  • HDFView
• CLI
  • Getting Help
• Reference
  • Python Module
  • CLI Reference

Indices and tables

• Index

• Module Index

• Search Page