dagre
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setNode rank has no effect in your example
starting with your example at https://dagrejs.github.io/project/dagre-d3/latest/demo/clusters.html
I merely modified the edges then tried added rank to try and get node E to be at the top of the graph with node A. http://jsfiddle.net/wolf1/5nepm3vk/
No matter how I use the 'rank' attribute, it has no effect. I tried looking at your test cases in the repository under test/ but nothing worked.
Is there a way to get node E to be at the top of the graph with A ?
Can this be merged with dagre-d3?