Dear colleagues,
I am trying to plot a protein-protein interaction network in Cytoscape. My idea is to place the node representing the bait protein on one side of the figure, and on the other side, all the proteins with which it interacts, in a column (I attach a small example). The problem is that is difficult to see "where the edges go", I mean, which node interact with. This is because the edges bind the node in the center. I would like to change the position where the nodes and the edges interact and set it in the right side of the node.
I can not find any way to modify that in Cytoscape Desktop. Somebody has any idea?
Thank you very much
Pedro.
In Cytoscape Desktop, you can adjust the binding position between nodes and edges using the "Bend" tool:
1. Select the edge: Click on the edge (the line connecting two nodes) to select it.
2. Access the "Bend" tool: In the top menu, select "Tools" and then choose "Bend". Alternatively, you can use the shortcut key "B" to activate the Bend tool.
3. Add a bend point: Click on the edge where you want to add a bend point. This will create a new point on the edge, allowing you to adjust the position and shape of the edge.
4. Move the bend points: Once you have added the bend point, you can click and drag it to reposition the edge and change the binding position between the nodes.
5. Adjust the appearance: You can further adjust the appearance and curvature of the edge by adding multiple bend points and manipulating their positions.
6. Save the layout: After adjusting the edge binding position, you can save the layout to preserve the changes you've made.
Dear Pardis,
thanks I have been doing that but I was wondering if there is a automatic way to do it for all the nodes at once. Just setting the binding point at the right side of every node.
Best,
Pedro.
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