CODEWITHSUNDEEP
graphcytoscape
Evgeni Marinov
Evgeni Marinov

Reputation: 31

Unable to load Nodes table in Cytoscape from csv

I try to load a Node table from CSV (File -> Import -> Table from File) into an empty Network, in Cytoscape Version 3.8.0, Java 11.0.7 by Ubuntu.

The problem is that I don't get anything in 'Node table' (right bottom corner - only the attributes are visible). I try to load :

name, node_type ind01, user ind02, user ind03, article ind04, article ind05, user ind06, user

Loading from csv file

But get the empty Node table

Empty Node table at right bottom corner

Any help would be appreciated, Thank you.

Upvotes: 3

Views: 3529

Answers (1)

Scooter Morris
Scooter Morris

Reputation: 1388

Yes, it's possible, but a bit confusing. What you actually need to do is to use File->Import->Network from File, even if you have no edges. Just select only the Source and don't select a target and then make all of the attributes Source Node attributes. Cytoscape makes a distinction between "Tables" and "Networks". Tables (e.g. Node Table and Edge Table) are always attached to a network, so if you have an empty network, there is nothing for the rows of the table to attach to, hence you get empty rows. So, the workaround is to import your table as a network, with no edges, and you should be able to get what you want. Note that when you try to import your edges later, you'll have a bit of a challenge -- you'll actually need to import your edges as a separate network and then use Network Merge.

Upvotes: 4

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