Tagged Questions

Questions about handling graphs in Mathematica, graph theory, graph visualization, GraphPlot, the built-in Graph type and the Combinatorica` package.

757 views

How to visualize large graphs with directed edge bundling?

I'm wondering if anyone has implemented edge bundled graph plotting? An important paper is "Force-Directed Edge Bundling for Graph Visualization" by Danny Holten and Jarke J. van Wijk.
1k views

How to draw a directed graph with arrows showing vertically from bottom to top

If I have a directed graph, how can I draw it with arrows pointing vertically from bottom to top, like showing a class inheritance pattern in OOP(object oriented programming)?
299 views

Visualize the output of Trace in a tree structure

The output of Trace[expr] can be nicely represented as a tree, I guess. Here is an example trace. ...
434 views

When to use built-in Graph/GraphPlot vs. Combinatorica

What are the pros and cons of using built-in Graph/GraphPlot (and related) types vs. types in the Combinatorica package?
453 views

Combinatorica Graph from Edge List

Can someone provide an example of a Combinatorica-based graph which uses ShowGraph and Graph and takes in an explicitly defined list of edges (not some auto-generated graph). I have not been able to ...
314 views

How do I get VertexList to work directly on older graphs defined using rules?

In MMA 8, it seems that sometimes VertexList will work with rule-based graphs without needing GraphUtilities and at other times it won't. Once it starts working, it ...
192 views

Is it possible to make more room in a graph layout for my VertexRenderingFunction?

Consider the graph produced by: ...
858 views

Drawing Graph Products

I need to draw graphs that are Cartesian products of 2 graphs. I need them to look like this: . So each copy of the factors can have LinearEmbedding, but the whole ...
459 views

Need tips on improving this directed graph

First we define a function that returns the least odd prime factor. lopf[n_] := FactorInteger[n][[2, 1]] Then we craft a routine that performs the 3x+1 steps ...
430 views

Comfortable Edge Labeling of Undirected Graph

I'm working on a program that finds special [called "interval"] edge-colorings for graphs. Output is as follows: ...
1k views

How to find all vertices reachable from a start vertex following directed edges?

How to find all vertices reachable from a given start vertex following directed edges, in a cyclic directed graph given as ...
867 views

Visualizing the output of a Voronoi diagram computation

I need to plot a graph (to be specific: Fortune Algorithm output) with given vertex coordinates and a few unconnected vertices. I am thinking of using Mathematica for that. ...
186 views

Figuring out how AbsoluteOptions works with Graphs

I am puzzled by how AbsoluteOptions works with Graph objects. I would have expected that one could use it to obtain all the ...
574 views

How to recompute the layout of a Graph?

I asked a question about changing Graph properties in a similar way to how Show can change ...
222 views

Graph does not accept Property Options

My question is concerned with the Graph functionality, which was newly implemented in Mathematica 8. I already used GraphPlot ...
4k views

How to get graph layout that reflects edge weights?

My heart soared to discover that Mathematica 8 offers support for specifying a weighted adjacency matrix in WeightedAdjacencyGraph. But it seems that, regardless of the weights between edges, the ...
1k views

Coloring edges in GraphPlot

I'm a little stuck with graph drawing part of my research — I can't use the Graph function for plotting my graphs, because my graph is a multi-graph. ...
73 views

Graph relationships between functions and variables [duplicate]

Possible Duplicate: Has anyone written any function to automatically build a dependency graph of an arbitrary Mathematica function? I need to make sense out of a huge notebook (17Kloc) that ...
684 views

How to display edge labels above edges?

The following code shows that edge labels "cover" edges in GraphPlot3D ...
2k views

How to divide a graph into connected components?

Suppose I have some edges: edges = {1 -> 2, 2 -> 3, 3 -> 1, 4 -> 5, 3 -> 6, 7 -> 8, 8 -> 9, 8 -> 10}; And I make a graph: ...
666 views

How to extract edgeweights from a graph

I have a graph with weighted edges, and I'd like to obtain the edge weights of the edges in the graph. Is there a nicer way of doing this than getting the ...
185 views

Is it possible to manipulate graphs by hand? [duplicate]

Possible Duplicate: Generating graphs interactively (GUI) If I plot a graph, is it possible for me to manipulate the vertices such that when I move them, their attached edges will follow. One ...
6k views

Finding all shortest paths between two vertices

The built-in FindShortestPath and GraphDistance functions find the shortest path between two particular vertices in a graph. I ...
1k views

Finding a “not-shortest” path between two vertices

In designing a routine for making a simple three dimensional (5x5x5) labyrinth, I realized that my solutions (a solution is a labyrinth includes a single path from {1, 1, 1} to {5, 5, 5} in a 5 x5x5 ...
247 views

3x+1 on arithmetic chains, tree pruning and NestList

Given the following function Collatz: ...
203 views

Is UndirectedEdge[a,b] the same edge as UndirectedEdge[b,a]?

Is UndirectedEdge[a,b] the same edge as UndirectedEdge[b,a]? Then please consider this. ...
309 views

Cases[data,Colon[key,_]] vs. Cases[data,key:_] toward XPath, XQuery

Exploring methods to index and search tree-structured key:value pairs via named-entity index (key paths) as opposed to Position-based indexing. Using Rule as <...
785 views

When using GraphPlot with an adjacency matrix, how can I make Mathematica draw exactly one self loop for any non-zero weight?

I have tried using the option MultiedgeStyle->None, but apparently Mathematica doesn't treat self loops in the same way it treats edges. For example, I find <...
220 views

NumberOfSpanningTrees command not working correctly

I am attempting to use the Combinatorica NumberOfSpanningTrees command for all n-cycle graphs from 3 to 30. I am trying to get a ...
610 views

Edge problems in a directed graph

I want to create the following two graphs. So far I tried the following Code ...
2k views

Simple algorithm to find cycles in edge list

I have the edge list of an undirected graph which consists of disjoint "cycles" only. Example: {{1, 2}, {2, 3}, {3, 4}, {4, 1}, {5, 6}, {6, 7}, {7, 5}} Each ...
229 views

This code: ...
218 views

What's the most intelligent way to store the information of a selfmade graph?

I have a very long list of element, say $a1,a2, a3$,..., and they are all connected in that each is the child of many parents. E.g. $a74$ is associated with $a2,a55,a71$, and also contains information,...
543 views

Listing subgraphs of G isomorphic to SubG

If I have an undirected graph G, how could I write a function in Mathematica to obtain a list of subgraphs of G that are isomorphic to some other undirected graph SubG? I'd like to learn how to ...
3k views

Cycles of length N in a graph

If I have an undirected graph represented with an adjacency matrix, how can I find all the subgraphs which are a cycle of length N? I don't really know the math nor the programming language well, so ...
2k views

Generating graphs interactively (GUI)

I want to create graphs interactively using a GUI. I thought of using a ClickPane[] environment. The code I have (in part borrowed from the Documentation) works ...
471 views

Packed Graph or GraphPlot output with non-square layout?

Graph or GraphPlot produce square layouts for disconnected graphs: Graph[Table[i -> Mod[i^3, 100], {i, 1, 100}]] I´d like to get a rectangular layout with e....
642 views

How to impose custom style to the edges of a graph

We construct a graph as the following. ...
223 views

HITS centrality

I want the centrality measure of a particular vertex in my graph, and for Closeness, Betweenness and Degree centralities I have been using : ...
304 views

Truncate TreeForm to show only the top

For some expressions, TreeForm may grow very long. I'm only interested in the top levels of the expression. How can I get the tree form of only the first levels an ...
181 views

I tried to use VertexLabelStyle, but seemed not recognized in my system with version number 8.0.0.0. Is this expected or I have missed something? From the online ...
1k views

How to add vertex/edge labels to existing graph

If I have already created a graph using Graph. Later, I want to add to the graph some vertex and/or edge labels, how can I do that? Thank you.
517 views

Get the neighboring vertices and incident edges from a vertex in a graph

I need to get the neighboring vertices and incident edges from a vertex in a graph. I assume NeighborhoodVertices can be used for the former. Anything better? Or ...
1k views

How to write a function to add edges or vertex to a graph

I need to add either a vertex or an edge to a graph, and also sometimes, vertices or edges, or a mixture of the two. How to write a function for this?
434 views

Convert GraphPlot[]s with many nodes into something that's human-understandable

This is more of an abstract/creative problem. I think everyone who has played around with GraphPlot, ended up with an image that looks like this, at least once in ...
1k views

How to plot layered graphs?

Given a directed acyclic graph, there is always a possibility to plot the graph as layers, where nodes always send edges into one direction (usually down), to successive layers, and never backwards. ...
408 views

Centrality measures for single nodes

I am producing a graph, generated by a list of adjacent nodes. (The list looks like {1 ->583, 1->2977, 2->14, 4->1293, 5->221, ...}. Each node of my ...
3k views

How to plot planar graphs as such?

A planar graph is a graph that can be drawn in the plane such that no two edges cross. For example, the graph ...