CyToStruct — Cytoscape app for executing external applications in command or batch mode

Mainly targets programs for visualizing molecular structures (PyMOL, Jmol, Chimera, VMD etc.)

If you're using this plugin please cite: Nepomnyachiy, Sergey, Nir Ben-Tal, and Rachel Kolodny. "CyToStruct: augmenting the network visualization of cytoscape with the power of molecular viewers." Structure 23.5 (2015): 941-948.

###Motivation and Overview

• Installation
• App template
• YAML syntax
• Variable substitution
• Batch mode
• Data files
• PATH
• Path navigation idiosyncrasies
• Demos