Basic visualization tutorial questions about cytoscape-tutorials HOT 2 CLOSED

Hi Jim,
Thank you for your interest in Cytoscape, and for including it in your class!
You are correct that the data is from the Ideker publication, and you are also correct that the distributed data is a subset of the full dataset. I believe the mappings between columns that you propose are correct, but since the numbers don't match I think the data must have been further processed before being packaged with the Cytoscape distribution. The fact that the data is very old makes it difficult to track down, as the original people involved have left our team. We will be revamping our basic tutorial content with new data that will be clearly explained. Until then, I am trying to find an answer for you regarding this data.
Regards,
Kristina

from cytoscape-tutorials.

Echoing Kristina's comments. The galFiltered.sif network has been the main "toy" network for the project for many many years. No one in the group was involved in the original research. I would only consider them loosely related. If you want active research examples, I'd look elsewhere. We are working on these in areas of automation, for example: https://github.com/cytoscape/cytoscape-automation/blob/master/for-scripters/R/advanced-cancer-networks-and-data-rcy3.Rmd

But the point of all of these is to learn the tool and we don't aim to discuss biological discovery with these examples.

If you work out new examples with biological discovery as the point, please consider sharing them through our open repos:

• https://github.com/cytoscape/cytoscape-tutorials
• https://github.com/cytoscape/cytoscape-automation

Thanks.

from cytoscape-tutorials.