Question: Merge Networks using Cytoscape
gravatar for Soltani
5.2 years ago by
Soltani50 wrote:


I have Two Regulatory Interaction Networks (RegINs) created from two different databases (miRNAs-Targets interactions) ! I tried to merge the two files to obtain a global network but everytime i lose some important nodes ! Please tell me  How can I merge the two RegIns without losing any node or edge ! Thanks in advance!

ADD COMMENTlink modified 5.1 years ago by Biostar ♦♦ 20 • written 5.2 years ago by Soltani50

Could you please provide some clarification. Are you trying to merge network using build-in Cytoscape functions? Are you storing yout networks in tab-delimited tables (net/nodes/edges) and then import them to Cytoscape?

ADD REPLYlink written 5.2 years ago by mikhail.shugay3.4k

Am trying to combine two Regulatory Interaction Networks files (xgmml files) e.g Tarbase-xgmml file  with Mirecords -xgmml file to obtain a global network that contain all miRNAs-Targets interactions from both databases.

ADD REPLYlink written 5.2 years ago by Soltani50

Ah ok. As far as I understand it could be not quite possible (!msg/cytoscapeweb-discuss/A-7IaZVWOnk/0xWARv53l5sJ), e.g. XGMML contains node coordinates, which are not straightforward to merge. Anyways, you have an option to export to tab-delimited table from Cytoscape (loosing some info), do merge for them, import them back and perform layout/setup VizMapper.

ADD REPLYlink written 5.2 years ago by mikhail.shugay3.4k
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1038 users visited in the last hour