Graphical user interface Application programming interface (API)
You can use the app from within the Cytoscape user interface. The best way to learn how the app works, is by going through one of the available tutorials. Since version 4.0.0, you now also access CyTargetLinker functionality through its API from the Cytoscape command tool or other programming languages like R and Phyton. Check out the general description of the API. For tutorials on how to run CyTargetLinker from R check here.