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Cytoscape Automation for Script Writers

Collection of sample scripts that provide support for automation.

cytoscape automation

2017 CyREST Competition

There were four winners of the 2017 CyREST Competition, all demonstrating solved problems using R and Python combined with Cytoscape Automation.

The winners were:

  • Leandro Lima (Python) teaser

    • Mined skateboarding data and produced simple visualization ... shows data acquisition and basic CyREST usage
  • Mark Grimes (R) teaser

    • Shows how derive multiple results from a valuable biological network, to compose visualizations and get them into a standalone browser display
  • Matthias König (Python) teaser

    • Uses SBML and time course simulation to produce animated pathway (using cy3sbml & roadrunner)
  • Ruth Isserlin (R) teaser

    • Extensive cell-cell interaction calculations in Python followed by simple but elegant styling and layout