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

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6
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1answer
786 views

Mathematica Package for Bayesian Networks

Are there any packages that allow the simulation of Bayesian Networks with Mathematica? I found what seemed to be a promising package (Dynamics) on a Brown University URL, ...
6
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1answer
654 views

Ordering vertices with minimum Edge Crossing in Circular Graphs

Weighted and sorted Mathematica circular graphs are shown below. My question is how to reorder the vertices in such a way that they have minimum cuts (intersection of edges) while keeping the circular ...
6
votes
1answer
140 views

Vertices, their labels, and how to refer to them?

In the examples I have seen, graph vertices in Mathematica are usually explicit small integers. However, Wolfram documentation says that vertices can be any arbitrary expression (eg., george, x^2, ...
6
votes
1answer
155 views

Graph rendering not working as expected

I'm running the older Mathematica v6 which seems to go through the edges of graphs twice. Is this a bug? Is it fixed on the latest version? Please just try this command: ...
6
votes
1answer
241 views

Adding/deleting weighted edges to a weighted graph

How can I add and delete weighted edges in a weighted graph? Using Graph in Mathematica I want to add a weighted edge to a weighted graph. The problem is ...
6
votes
1answer
313 views

Interactive Graph Editing with Animation

I want to make a simple interactive user interface like this: Such that when the user clicks on the "Add Edge" button, the edge specified by from and to fiels is added to the graph. The new graph ...
6
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0answers
82 views

HighlightGraph and Hyperlink

In the documentation of Mathematica it is mentioned that you can use Hyperlink and Tooltip as wrapper in a similar manner as ...
6
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0answers
110 views

Is there a function to generate a minimal clique cover?

This is a graph problem known as the "Clique Edge Cover" or "Intersection Number" problem, and the goal is to find, from a given graph like $E=\{\{a,b\},\{a,c\},\{b,c\},\{b,d\},\{c,d\}\}$ and ...
5
votes
3answers
992 views

Travelling salesman with start and end points for 30 points

I am doing a route optimisation for delivery vehicles and failing dismally. Please see problem statement below. My current solution uses FindShortestTour, but this does not have defined start and end ...
5
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3answers
629 views

Random Geometric Graphs

I'm trying to implement an application which uses random geometric graphs in Mathematica, but it seems Mathematica lacks the functionality. I need the following functionalities: Generate a set of ...
5
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3answers
404 views

How to display edge labels above edges?

The following code shows that edge labels "cover" edges in GraphPlot3D ...
5
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3answers
169 views

StandardForm on Graph edges

The Graph command displays edge labels in TraditionalForm. I instead want to use ...
5
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3answers
153 views

Converting expressions to “edges” for use in TreePlot, Graph

This question is similar to this: Nested list to graph. How to "flatten" an arbitrary expression, eg expr = a[b[c, d[e][f], g], h] to a list of key-value pairs ...
5
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3answers
282 views

Rendering polygon as graph with directed edges in Mathematica

In Mathematica I'm trying to render a polygon as a set of vertices and directed edges. What I have so far: ...
5
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3answers
338 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 ...
5
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2answers
124 views

Improving performance in the generation of random (directed acyclic) graphs

I need to generate large (directed, acyclic, transitive) graphs. My code in Mathematica gets very slow for large numbers of vertices. I've tried a number of approaches and I can't find any significant ...
5
votes
2answers
1k views

How to find the Shortest Path, visiting ALL vertices, without coming back to the start (Hamiltonian Path, minimum distance)

A car has to pick up each person and take them to their destination. I am trying to find the shortest tour that will do this. How can I find the shortest path between any s and t.... visiting all ...
5
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4answers
2k views

How to generate random directed connected graph?

How to generate random directed connected graph? I need to create graph which will pass: ConnectedGraphQ[^]
5
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3answers
312 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 ...
5
votes
1answer
366 views

How to display each step of an A star algorithm?

I wrote a pathfinding program: A*, which is an extension of Dijkstra. I want to see the result of each step at a time. Which function should I use? The main program is the notebook Astar, which is ...
5
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1answer
143 views

Keeping vertexcoordinates after adding a new vertex

I want to add a new vertex to a graph, with fixed VertexCoordinates but when I use VertexAdd, the new graph does not have the VertexCoordinates of the previous one. ...
5
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3answers
228 views
5
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2answers
319 views

Colorize and the Four-Color Theorem

We can write: MorphologicalComponents[image] // Colorize To assign a random set of colors to each component in some image. The example used for reference by ...
5
votes
1answer
472 views

How can I draw a polygon from a set of angles?

In recreational mathematics, polytans are polygons formed by edge-connecting isosceles right triangles. Order-n polytans are those constructed from n such triangles. My question is this: Given a ...
5
votes
2answers
348 views

Merging (combining) tables of graph relationships (2-mode to 1-mode network)

I have some data of corporate board members in Australia in excel format here (Dropbox public link). It is the data behind this graph. The first worksheet is of all the vertexes (directors and ...
5
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3answers
221 views

Nested list to graph

The following nested list can be regarded as a representation of a (tree) graph: ...
5
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2answers
265 views

Is there something akin to “SubgraphIsomorphismQ” in Mathematica 9?

Provided two unlabeled graphs, $G$ and $H$, I would like to test where $H$ is a subgraph of $G$. In other words, I'd like to test whether we can prune some fixed number of vertices or edges from $G$ ...
5
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2answers
196 views

Is there something wrong with VertexConnectivity

As I noticed in the documentation VertexConnectivity is defined as the following The vertex connectivity of a graph $g$ is the smallest number of vertices whose ...
5
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3answers
330 views

Fast code to generate large random graph with fixed degree sequence

I'm trying to create a function so to generate large random graph with a fixed degree sequence $\{v_1,v_2,\dots,v_N\}$, where $N$ is the number of vertices in the graph. The Mathematica function that ...
5
votes
1answer
471 views

All possible topological orderings of a graph

TopologicalSort[] returns one of many unique orderings. From wikipedia: if a topological sort does not form a Hamiltonian path, the DAG will have two or ...
5
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2answers
307 views

How to add new nodes to an existing graph with fixed (coordinates) nodes?

I'm ultimately trying to create a directed graph with some of the nodes in fixed positions and the other nodes placed around them in "acceptable" positions. It's better if I ask the question by ...
5
votes
2answers
214 views

Graph does not evaluate some options when not displayed

How can I force Graph to evaluate all its options without actually displaying the graph itself? Evaluating the following code ignores the ...
5
votes
1answer
208 views

How to view all graphs available in GraphData?

Is there a "gallery" view of all the graphs available in GraphData? I realize that some graphs may not lend themselves to such representation (e.g. some may have ...
5
votes
1answer
372 views

Accessing the graph Thinning produces without losing all the edges' lengths/slopes

This is a follow up to the OCR question I had earlier. What I want to do is to use Thinning to create "skeletons" of images of characters and then compare their shapes, utilizing such properties ...
5
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1answer
940 views

When do I use Mathematica, when do I use Gephi, and how do I use them together?

Mathematica has great operations for analyzing graphs but when the graphs are a bit bigger, Gephi seems to be more efficient (at least on my computer) at drawing and analyzing, i.e. visualizing the ...
5
votes
1answer
296 views

How to determine edgeweights from width of skeleton using MorphologicalGraph (or workaround)?

Background I'm trying to create a workaround for what seems to be a bug in MMA's graph functions related to edge weights: SO: How to Label Graph Edges with their weights According to MMA's ...
5
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1answer
194 views

Shortest polygonal path

I'd like to find the shortest distance between some points (every point must be visited), such as between these 3 points: ...
5
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1answer
224 views

Processing and storing a graph with a large number of vertices s.t. k-hop neighborhoods are efficiently retrievable

I have an unweighted, undirected graph $G$ with $(v_1, ..., v_N) \in V$ vertices, where each vertex in the lattice represents a string of some length ($\leq 200$ characters), and I need to construct ...
5
votes
1answer
71 views

Setting PropertyValue for VertexWeight is not persistent

g = CompleteGraph[8, VertexSize -> Medium]; PropertyValue[{g, VertexList[g][[1]]}, VertexWeight] = 10; PropertyValue[g, VertexWeight] ...
5
votes
1answer
145 views

Why do vertex labels disappear when I edit with drawing tools?

I'm trying to change the text and arrow style in GraphPlot using the drawing tool, but the the vertex labels disappear when I do that: ...
5
votes
1answer
227 views

How do I find a weighted bipartite graph's minimum edge cover using Mathematica 8?

In graph theory, we use the Hungarian Algorithm to compute a weighted bipartite graph's minimum edge cover (a set of edges that is incident to every vertices, the one with the minimum total weight.) ...
5
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0answers
253 views

How to compute the genus of a Graph? [closed]

What's the simplest way to compute the genus of a graph using Mathematica? I have looked for a Genus function (even in the ...
5
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0answers
70 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) ...
4
votes
3answers
598 views

How to find all graph isomorphisms in FindGraphIsomorphism

I found the second definition of the function FindGraphIsomorphism not working. Here's the definition Mathematica 8 gives: ...
4
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2answers
174 views

Visualize difference between members of the list

I want to visualize the difference between members of a set: set = {20, 36, 70, 96, 152, 301} This way I get the diffs: ...
4
votes
2answers
243 views

Efficiently determining the largest minimum cost to travel from a fixed source to an arbitrary sink in a weighted graph

Let $v_i$ be a vertex in a graph $G$ with vertices $(v_1,...,v_N) \in V$ and edges $(e_1,...,e_M) \in E$ with associated weights $(w_1,...,w_M)$. Let $v_s \in V$ be specified vertex in the graph. In ...
4
votes
3answers
675 views

Minimum spanning Tree from a weighted adjacency graph

Note: Cross-posted at http://community.wolfram.com/groups/-/m/t/137658?p_p_auth=8QnKtT9I I have a really big graph, 40x40. Here is my code ...
4
votes
2answers
163 views

HighlightGraph with style

In this picture you see a graph. The shortest path between vertex 5 and vertex 3 is highlighted in red. Instead I want blue highlighted edges of thickness 10. ...
4
votes
2answers
1k views

How do I plot a solution of a differential equation?

I am having trouble generating a plot for a solution to my differential equations. I always end up with just blank axes. ...
4
votes
3answers
475 views

Graph generation given number of edges and nodes

I was wondering if it is possible to have Mathematica generate all graphs with a given number of edges and nodes (and possibly restricting the adjacencies) and draw them I know that there are some ...