my question is awkwardly simple:
how do i plot a bipartite graph in Gephi with a layout like the one you see in the attached image?
I really am not able to find an appropriate layout in Gephi's options
thanks
Gephi version 0.9.1 has an Event Graph Layout plugin that will do this: Tools -> Plugins -> Available Plugins. Under Data Laboratory, you'll need to add an integer-level variable to your Nodes data table ("Mode" for example), set all of your B nodes to 1, and all of your R nodes to 2. Select that variable in the Order setting of the layout options. You'll likely have to bump Scale of Order up to get decent separation between your modes.
Related
I'm trying to render a tree that is very broad... and it renders, as expected, in a long, skinny horizontal image.
Problem is that I need a graph suitable for a document. I would very much like to take and move the nodes that are rendered horizontally and "drag" them down so that the graph is more vertical... with the edges curving to accommodate this. Are there any clever ways to accomplish this? GraphViz settings? Third party tools that let me manipulate and fine tune the output? I work mostly in the Python ecosystem, but open to others. Also open to the use of tools like Visio and other pro drawing tools. Thanks!
Edit
After implementing the answer below by #sroush, and then tweaking a little further with Photoshop, got some nice results.
Tweaking the above in Photosop. Had to add the two curved edges after the secondary node by hand, but it's worth it. Much more presentable.
I assume you are using dot, and your graph "naturally" has only a few ranks (rows).
There are a few tweaks that will help a bit (reducing node horizontal footprints):
node [shape=rect] // snugger fit into rectangles
insert newlines into node labels e.g. xxx [label="Controller Board\n#19_8"])
Also try the unflatten program (https://www.graphviz.org/pdf/unflatten.1.pdf). It will increase the apparent number of ranks (rows).
See related question here with command line examples:
Distribute nodes on the same rank of a wide graph to different lines
You can use the minlen property to limit the minimum level span of some edges.This avoids the result becoming very long in the horizontal position.
For example:
digraph {
a->b
a->c
a->d
a->e
}
This will output the following image:
But when minlen is used, the picture will become longer vertically but shortened horizontally:
digraph {
a->b
a->c
a->d[minlen=2]
a->e[minlen=3]
}
I read a couple of posts on position nodes in force layout but didn't find an answer to what I was looking for.
I have an object with nodes and links.
I' trying to create a graph which would show all the nodes top to bottom.
I was looking at the example code from here:
https://github.com/danielstern/force-graph-example
Here's a screenshot of the result:
I'm trying to find a way to position each node so the nodes without parents would be on the top and the ones connecting to them would be under them and so forth.
Here's an image to illustrate it:
Right now, all the nodes are scattered randomly.
I wanted to if I need to actually calculate the position of each node in a vertical view or is there a smarter/built-in way to achieve it.
I looked at this example which looked promising:
How to organise node positions in D3 Force layout
But in my case I don't have a way to differentiate between nodes levels so I don't think the yPostion would help.
I was also looking at thes post:
d3.js - How can I expand force directed graph horizontally?
According to #Lars Kotthoff:
"The point of the force layout is to automatically lay out a graph like this so that you don't have to specify the positions of the nodes yourself".
Since my graph is not really a tree, I don't think the tree view would match.
What would be my best approach to position the nodes?
Or perhaps there's a better library to achieve what I need?
I found this package:
d3-dag
It basically supports what I need:
"Often data sets are hierarchical, but are not in a tree structure..."
Here's an exmaple:
exmaple
I would like to layout a network graph in gephi, which in many cases looks like the one below. What will be a good choice for my layout?
Force Atlas 2 or Fruchterman Reingold would give you results similar as the one here. Both are installed by default in Gephi.
I want to be able to choose the layer that the Nodes appear and change it throughout the course of the program.
I know that the last added Nodes appear on the top of the previous one.
In swing, I use JLayeredPane and its method setLayout(JComponent, integer). The higher the int, the higher level the component appears on screen.
Is there something similar?
Thank you
I think you can play with the z-order indices of child nodes by combinations of
Node node = pane.getChildren().get(index);
Node node = pane.getChildren().remove(index);
pane.getChildren().add(newIndex, node);
A layout has been done to do this job : StackPane.
The JavaFX tutorial has a chapter dedicated to it.
The different pane are stacked but if the opacity is not set to 100 %, they are all visible.
I need to display a Directed Acyclic Graph in a web page. I am not looking for an off-the-shelf library or solution. I am looking for suggestions, recommendations or a push in the right direction.
1. DAG Visualization
I am not sure of how the nodes and relations will be represented. Viable solutions may be Treemaps, the good old node & line or a combination of that two. I don't have a problem if one node appears more than once on the screen.
I don't need all the nodes to appear on the screen from the start. The user may expand a node by double clicking or zooming for example.
I am open to all suggestions and advices.
2. Technology
There are some functionalities that the implementation must have:
drag & drop
zoom
events on mouse interaction with nodes
From my point of view, I have 2 options (Flash is out of the question):
a. HTML5 Canvas
Disadvantages: no vectors, basically just an image; no implicit mouse events on nodes;
Advantages: speed; popularity; animations
b. SVG
Disadvantages: low speed when there are many nodes;
Advantages: vector graphics; elements are in the DOM so you can have events and so on;
c. A mix of HTML5 Canvas & SVG
Assuming you want to dynamically update your graph, you could probably use python on the server with the pydot GraphViz module.
I have not tried this, but it's something worth looking into.