Tutorials for Seekrtools

Follow these tutorials to learn how to use Seekrtools.

It is assumed that you have completed the installation and tests outlined in the Installation documentation.

Also, it is recommended that you complete all tutorials in the SEEKR2 repository at https://seekr2.readthedocs.io/en/latest/tutorial.html before beginning the tutorials here.

Contents:

• Tutorials for Preparing the Trypsin/Benzamidine System
  • Tutorial: Parametrizing the Trypsin/Benzamidine System
  • Tutorial: Generating Trypsin/Benzamidine Starting Structures With HIDR
• Deprecated Tutorials
  • Tutorial: Equilibrating the Trypsin/Benzamidine System
  • Tutorial: Generating Trypsin/Benzamidine Starting Structures with SMD Scripts
  • Tutorial: Generating Trypsin/Benzamidine Starting Structures With HIDR