search

cytoscape / cytoscape-tutorials

Collection of modular Cytoscape tutorials for online presentation using reveal.js
Creative Commons Zero v1.0 Universal
309 stars 118 forks source link

Create simple protocol based on STRING #66

Closed khanspers closed 4 months ago

khanspers commented 2 years ago

Even better, we should extract out this simple, most common use case on it's own:

  1. query STRING by gene name (based on example dataset)
  2. load data (mapping via "query term" column)
  3. style network
  4. comment on largest connected subnetwork

This should be separated from the disease query use case. So, maybe just split the current tutorial into two: diff exp network viz and disease network viz.

Originally posted by @AlexanderPico in https://github.com/cytoscape/cytoscape-tutorials/issues/50#issuecomment-720135694

khanspers commented 4 months ago

Actually, example 1 in Diff Exp tutorial is exactly this. With the slight difference that we are using identifiers instead of gene names, and we include both up- and down-regulated as separate examples.