Software needed for Monday-Wednesday

  • NAMD 2.12b1
  • VMD 1.9.3
  • Plain text editor program (such as Notepad on Windows, nedit on Unix, TextEdit on MacOS)
  • Plotting program (such as Excel on Windows or QtGrace on Unix/MacOS)

Software needed for Thursday-Friday

We generally recommend installing Anaconda Python and then simply run from a terminal:

$ conda config --add channels salilab
$ conda install imp numpy scipy scikit-learn matplotlib

This approach will get you everything you need above except UCSF Chimera.

Basic usage of Modeller and PatchDock will also be demonstrated if there is enough interest.