Question: Cytoscape's plugin 'stringApp' error
1
gravatar for anu014
10 months ago by
anu014160
India
anu014160 wrote:

Hello Biostars,

Today, I'm doing network analysis using Cytoscape. I installed 'stringApp' plugin for getting STRINGDb network. After adding 'gene symbol' list in it, I ran strinApp. As a result, got node, edge and network text files. The node file I got contains those genes also which I never entered in input!

Has anyone faced such problem? or is it something very obvious?

Please help me out. Thanks in advance!

cytoscape gene software error • 421 views
ADD COMMENTlink modified 10 months ago by xanderpico170 • written 10 months ago by anu014160
2
gravatar for xanderpico
10 months ago by
xanderpico170
xanderpico170 wrote:

In Cytoscape, the stringApp installs into the network search bar at the top of the Control Panel. I think this is where you are pasting/typing your list of gene symbols, which is correct. Before clicking on search (the magnifying glass icon), however, you will want to click on settings (the three line icon). Here you can specify how many "additional interactors" you want. Set it to zero and then you'll just get interactions between you original input.

ADD COMMENTlink written 10 months ago by xanderpico170

Yes, that's it! Thanks xanderpico.

ADD REPLYlink written 10 months ago by anu014160
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