Hello, I have been struggling to get positional information or subcellular localization of proteins as demonstrated in 4:44 using Cytoscape String. Can you please provide links/explanations for this?
I first ran a clustering (MCL) so that each node got a new attribute in the node table, namely the cluster number. I then use this attribute to do an Attribute Circle Layout, thus placing all the nodes on a circle with the nodes from the same cluster being placed next to each other. Finally, I use the Bundle Edges functionality in the Layout menu to curve the edges.
![Introduction to Social Network Analysis [1/5]: Main Concepts](http://i.ytimg.com/vi/lnLW6ITFY3M/mqdefault.jpg)
Thank you for clear and useful presentation.
Glad it was useful to you!
This was super useful, thank you!
Glad it was helpful!
I love that red chair!!
Thanks - it is the Variér Peel chair.
@@larsjuhljensen Awesome, I was wondering what it was, thanks for sharing! I would absolutely put that in my house, it looks so cool.
Hello, I have been struggling to get positional information or subcellular localization of proteins as demonstrated in 4:44 using Cytoscape String. Can you please provide links/explanations for this?
Which organism are you working on? We only have subcellular localization information for a subset of the organisms in STRING.
How do you make the circular layout with the edges curved as seen at 1:33?
I first ran a clustering (MCL) so that each node got a new attribute in the node table, namely the cluster number. I then use this attribute to do an Attribute Circle Layout, thus placing all the nodes on a circle with the nodes from the same cluster being placed next to each other. Finally, I use the Bundle Edges functionality in the Layout menu to curve the edges.