CyNDEx is a lightweight app that allows import/export of single networks and network collections between [http://www.ndexbio.org The Network Data Exchange (NDEx)] and Cytoscape. Users can conveniently install or update the CyNDEx app directly from Cytoscape using the built-in App Manager.
## Known Issues and Limitations
- **CyNDEx** can be used with **Cytoscape 3.3.x, 3.4.x or 3.5.x**.
If you are running Cytoscape 3.6 or higher, please use the **[http://apps.cytoscape.org/apps/cyndex2 Cyndex-2 App]** instead (CyNDEx-2 has become a "Core Cytoscape App" starting from Cytoscape 3.6.1).
- **When a network imported from NDEx is saved as a `Cytoscape session file (.cys)`, the session file loaded at a later time and the network re-exported to NDEx, some data loss may occur.** _We recommend you import and export networks back to NDEx rather than save them as session files_.
In order to install CyNDEx, you must have **Java 8** and **Cytoscape v3.3** or higher installed on your system. Once installed, CyNDEx controls can be found in the **Apps** menu item as shown in the screenshot below.
The NDEx Team has put together a step by step **[http://home.ndexbio.org/ndex-cyapp-tutorial-alt/ CyNDEx Tutorial]** to help you get started using this app and provide additional useful information.
To report a bug in this app, please use the **[http://www.home.ndexbio.org/report-a-bug/ NDEx Bug Report Form]** and make sure to select "CyNDEx" from the **Product** dropdown menu.