question about how to retrieve information on a table created by external app

[jpinero]

Hi!

I would like to retrieve the information in a table that is created when an enrichment analysis is performed using the disgenet APP (https://apps.cytoscape.org/apps/disgenetapp). I have tried " getTableColumns('DISGENET Enrichment, network = 86319)" but this does not work. I have checked the documentation, and I cannot find a function to retrieve data from tables outside the node, and edge tables.
Thanks!!

[AlexanderPico]

Swagger is great to figuring out the path for RCy3 functions. In your Cytoscape session: Help > Automation > CyREST API.

Then expand Table and find "Get all Tables assigned to the Network". Try it out in the GUI to see the result and what the actual name and SUID is for the DISGENET Enrichment table. Then you should be able to getTableColumns().

And anything you can do using Swagger can be done in RCy3, so then I'd encode these steps in my R script so that I could call these functions for any future network and table, etc.

[jpinero]

this is really useful, thank you!

[jpinero]

but I still can't retrieve the information on the enrichment table :(

[AlexanderPico]

The app authors may have indeed implemented their table in a way that is not accessible. I tried with the "extra" table added by the EnrichmentTable app and it works fine, but I did not implement the DISGENET app, so I'm not sure. Looks like it's open source and updated recently, so you might reach out to them?

https://apps.cytoscape.org/apps/disgenetapp

[AlexanderPico]

Feel free to cc me in your contact and I can provide details about CyREST if that's helpful to them. alex.pico@gladstone.ucsf.edu