I am using the Group Attributes Layout on a target node column in Cytoscape Desktop. All target nodes are grouped and sorted as expected. The source nodes are also grouped in a circle which is desired, I just cannot figure out how to get those (source nodes) in a custom order.
It's pretty easy -- just start by selecting your target nodes, then doing the layout using "Selected Only". That will only layout your target nodes. Then repeat the process for your source nodes.