Questions tagged [graph-theory]
A field of combinatorics relating to the study of vertices and the edges that connect them
69
questions
1
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0answers
10 views
polylog implementation of fully-dynamic graph connected-components?
I have read about papers in the last 20 years that have solved this problem. Many are mentioned in http://jamiemorgenstern.com/teaching/s18-6550/notes/notes-lec4-dgc.pdf
Unfortunately the only ...
1
vote
1answer
39 views
How can I determine if there is a closed-loop path in a graph?
Assuming I have a computer representation of a graph presented in the figure below:
How can I find out whether there are some close-loops inside the graph, like the one marked in red (or more ...
3
votes
2answers
98 views
Find shortest path around a cylinder represented by 3d triangular mesh
Suppose I have a 3d triangular mesh with the topology of a finite cylinder. Let $C$ be a vertex on that mesh.
How can I find the shortest path from $C$ to itself that goes around the cylinder? By ...
0
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0answers
21 views
Controllability - Maximum Matching
I found this image on wikipedia referring to Barabasi's work on Network Controllability.
I tried to verify it.
We have a A matrix of dimensions (20 by 20) made as the image suggests. According to the '...
1
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0answers
17 views
Find all recurring subgraphs/patterns of maximal size in a single undirected, labeled, connected graph
I would like to identify all subgraphs of maximal size (maximum number of nodes) that are recurrent in a single undirected, labeled, connected graph. I provide exemples of input and expected output ...
4
votes
2answers
116 views
Efficient algorithm to decide if a graph is a cactus?
A cactus is a connected graph in which every edge belongs to at most one simple cycle.
How should one modify the Depth First Search algorithm to obtain an efficient algorithm that determines if a ...
0
votes
1answer
119 views
Finding a shortest path in a graph
If each edge of a graph $G$ is unweighted or has equal weights, then the shortest path between two nodes in that graph is the path that contains the fewest number of edges. Such a path can be obtained ...
1
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1answer
51 views
Vehicle Route assignment with capacity constraint
Problem Background
I'm trying to find a solution/model to the following problem:
Let's consider a cellular network (mobile network, ie., hexagonal cells) denoted $N$ composed of $|N|$ cells. Each ...
0
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1answer
227 views
How to reorder/cluster adjacency matrix to maximize the interaction along the super diagonal?
I have the following code which takes a DataFrame and plot the pdist matrix.
...
3
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0answers
110 views
Factorize laplacian in terms of first derivative matrix
I am trying to factorize the following Laplacian matrix in terms of $ D^TD$, D is the first derivative matrix.
The tridiagonal form of the secon derivative matrix using Neumann boundary condition is ...
1
vote
1answer
80 views
Splittable and non-splittable flows in the network flow problem
I am working on a multi-commodity flow problem where for a graph $G=(V, E)$, some flows are permitted to be split and some flows should strictly follow one path. I have formulated this problem as ...
4
votes
2answers
227 views
Moore-Penrose pseudoinverse of singular rank degenerate matrix
I am trying to attain the Moore-Penrose pseudoinverse of a very large, very sparse, rank-degenerate, singular, and square matrix. ($75000 \times 75000$, near rank). The matrix is a graph Laplacian and ...
3
votes
1answer
41 views
Software for finding a minimum vertex cover for a hypergraph
A hypergraph $H = (V,E)$ consists of a finite set of vertices, say $V=\{1, \dots, n\}$ and a set of hyperedges $E \subseteq \mathcal{P}(V)$. We call $H$ a $k$-hypergraph if all $|e| = k$ for all $e\in ...
2
votes
2answers
182 views
Find connected circles
I have a problem as follows:
We have a set of circles (we know the radius r and the center point c in Rd of each circle)
We ...
0
votes
1answer
246 views
Hypergraph matching -> adjacency matrix?
I need to do a matching on a hypergraph. I read that in the case of a hypergraph there is no adjacency matrix.
How do I represent edges then?
0
votes
1answer
61 views
simple and fast graph-clustering for paralelization of finite element simulations
I'm learning to use OpenCL to optimize some of my simulations. I realized that I need some sort of Graph-clustering or graph-partitioning to exploit efficiently local memory for un-ordered meshes.
...
1
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0answers
218 views
First approximation to the TSP in a non-complete Graph
I'm trying to solve the Travelling Salesman Problem in a non-complete graph $(G,E)$ using genetic algorithms.
My problem is that I can't find a good first approximation by the usual greedy algorithms,...
2
votes
1answer
203 views
Efficiently generate a random subgraph (Gs) with maximum degree K, using only edges from an existing graph G
I am looking find a way of efficiently generating a random, undirected subgraph $G_s$ with $N$ vertices, using a subset of edges from an exisiting undirected graph $G$, also of size $N$, where the ...
0
votes
1answer
620 views
Can a Depth first traversal of a graph visit node more than once? [closed]
Is there a way in which Depth First Traversal will put a node into the stack more than once using the general algorithm as shown here.
Also, is it compulsory for all nodes to be entered into the ...
1
vote
1answer
65 views
Does the box-covering algorithm work also for directed graphs?
According to this article from Wikipedia, the box-covering algorithm calculates the fractal dimension of a graph. The algorithm is based on the concept of distance between nodes; see for example the ...
2
votes
2answers
430 views
PageRank using Inverse Iteration Method by Cleve Moler
I was trying to understand how to use the inverse interation method to compute the page rank as an exercise.
In this chapter (page 4) about page rank (by Cleve Moler), the author suggests to use the ...
1
vote
0answers
26 views
Chinese character component-based layout engine algorithms [closed]
I am looking for a PDF describing Chinese character component-based layout engine algorithms. These should allow for recursive encodings of radical and non-radical components, and the encodings should ...
1
vote
0answers
124 views
Updating factorization of Laplacian (add/remove edges)
For a graph $G=(V,E)$, recall that the unweighted Laplacian is $L:=D^\top D$, where $D\in\{-1,0,1\}^{|E|\times|V|}$ is the graph "gradient" operator that subtracts adjacent vertex values onto edges.
...
13
votes
6answers
4k views
What is a common file/data format for a mesh (for FEM)?
I'm developing an FEM simulation. For early testing, I will use simple self-written mesher and visualisation of the mesh graph. But I want to prepare my program to use data generated by an existing ...
1
vote
0answers
44 views
Alternative to two “for” loops in finding best neighborhoods for TSP?
I am trying to solve Travelling Salesman Problems using tabu search. I have been able to successfully find "near enough" optimal solutions (as well as one optimal, yay!).
For the moment I am using ...
1
vote
0answers
40 views
Interior nodes of a closed graph?
Does anybody know if any graph partitioner library such as Metis, Scotch, or Zoltan can (besides splitting a domain), differentiate between internal (i) and boundary (b) nodes?
5
votes
1answer
73 views
Optimal partitioning of a graph
Consider a planar graph, where each node is associated with a weight. I would like to partition the graph such that the sum of the node weights in each group satisfy a minimum requirement. However, I ...
3
votes
1answer
106 views
Sparse Matrix Reordering
Matrix reorderings are important for many direct solvers. Sometimes the objective is to reduce the bandwith or the generated fill in by LU Decomposition. I am interested in a reordering which reduces ...
4
votes
0answers
84 views
Graph optimization for parallel processing
Consider the following example structure of overlapping images marked A,B,C,D. The possible overlaps are marked by gray color:
The structure can be represented by a weighted undirected graph (images ...
4
votes
3answers
584 views
Minimization of non-linear function
Problem Summary
I am trying to estimate the (x,y) coordinates of each node in a graph, where I know the distances between connected nodes. For example
Given this ...
1
vote
1answer
127 views
Measure the differences in vertices density in a graph?
Lets say in Graph $G$ we have two vertices $v$ and $u$, each vertex is connected to several neighbors by edges describing the distances $d_{ij}$ from these neighbors. The neighbors themselves are also ...
3
votes
2answers
646 views
How to calculate efficiently mesh edges midpoints?
I have a 2D mesh of triangles used in Finite Element method to discretize the domain. I want to calculate the midpoints of all the edges because I want to use $\mathbb{P}^2$ elements. I am using ...
1
vote
1answer
65 views
Finding Common Side of Triangle
Given a triangulation (geometry), are there known algorithm in finding common side of triangles, that is O(N) or better?
0
votes
1answer
140 views
how to partition a graph(matrix) into subdomains with different sizes
i am studying the solver for PageRank problems which drived from the web link graph.
I have tried using METIS to divided the matrix into subdomains, but METIS can only produce subdomains with nearly ...
3
votes
0answers
68 views
Absorbing BC's / PML on a graph
The wave equation,
$$\ddot{u} = c^2 \Delta u,$$
can be generalized to abstract graphs by using the negative graph Laplacian in place of the physical Laplacian.
Is there a graph-theoretic analog of ...
1
vote
1answer
691 views
Graph drawing with constraints
I have a (cyclic undirected) graph stored in a suitable structure (which depends on the language chosen). Nodes represent places in the real world and edges represent connection between them, so I ...
0
votes
2answers
367 views
How to represent molecules and compare equality
I originally asked this question at StackOverflow, and was suggested to bring it here.
I've seen this question about the representation of molecules in memory, and it makes sense to me (tl;dr ...
2
votes
1answer
85 views
graph theory operations to explore structure of a graph
I'm analyzing experimental data, and I've produced graphs that look similar to the attached sketch. When I look at the graph, I see structure in the connections (connections tend to be local, there is ...
1
vote
1answer
1k views
Efficient way to compute the cumulative weights of all subtrees rooted at each node in a tree?
I have a tree data structure (rooted, unbalanced, with unbounded branching factor), where each individual node has an associated 'weight'. For every node $n$ in the tree, I'd like to compute the ...
2
votes
0answers
90 views
Algorithm for optimizing graph interconnectivity
I have a partiuclar kind of graph problem and (not having a background in graph algorithms) I would like to know how this kind of problem is called in the literature and what algorithms exist for ...
1
vote
2answers
153 views
Rearrange a dense distance matrix to a 2x2 non-perfect block diagonal form
I have a distance matrix (square, symmetrical, non-negative, dense).
I want to split the objects into two well-connected groups.
Mathematically speaking, I want to group (re-arrange) the rows/columns ...
2
votes
1answer
200 views
Algorithm to equalize the area of random tessellation of various polygons
I am looking for an algorithm that I can apply for a random tessellation of polygons with different areas. The algorithm can relax the geometry of the polygons to a condition that all of them would ...
3
votes
0answers
128 views
The traveling salesman problem - Using Space Renormalization
Image attached is where I am at the moment. Blue dots=points/cities, Black x's represent central points in each box that contains at least one city, and pink dots represent the midpoint of these ...
0
votes
1answer
666 views
sparse matrix format with fast row and column access
Is there an efficient storage format for general, non-symmetric sparse matrices for which one can find all non-zero entries in a given row or column in $O(d)$ time? ($d$ is the max number of non-zero ...
3
votes
1answer
68 views
Minimizing expression DAGs
Say I have an expression involving adds, subtractions, and multiplications. I know that it is safe to assume commutativity, associativity, distributivity, etc., and would like to automatically ...
2
votes
1answer
107 views
k-splittable flow problem
The maximum k-splittable s-t flow problem(MkSF) that aims to find a maximum k-splittable flow between a given source and sink node is NP-hard. We do not require the paths to be disjoint, not even ...
3
votes
1answer
252 views
Optimal Scheduling of Parallel Tasks with Known Dependencies
This is maybe a trivial question, but I am stuck with the problem.
Suppose we have a general graph:
$$G=(V,E)$$
Each edge represents a task, each vertex represents a data for the task (hence each ...
11
votes
3answers
824 views
Testing if two 12x12 matrices have the same determinant
I am given a $12 \times 12$ matrix $Q$ that is symmetric, invertible, positive definite and dense. I need to test if $$\det(Q) = \det(12I-Q-J) \; \; (1)$$ where $J$ is the all ones matrix.
I am ...
2
votes
1answer
526 views
Evolutionary algorithm - Traveling Salesman -fitness function
I'm trying to solve this problem using genetic algorithms and am having difficulty choosing the fitness function. My problem is a little different than the original Traveling Salesman Problem, since ...
0
votes
1answer
88 views
Unique Partition of a Graph
Given an undirected graph, is it possible to find a criteria that leads to a unique partition of the nodes? The graph is not weighted.
