Efficient Enumeration of Induced Subtrees in a K-Degenerate Graph

In this paper, we address the problem of enumerating all induced subtrees in an input k-degenerate graph, where an induced subtree is an acyclic and connected induced subgraph. A graph G = (V, E) is a k-degenerate graph if for any its induced subgraph has a vertex whose degree is less than or equal to k, and many real-world graphs have small degeneracies, or very close to small degeneracies. Although, the studies are on subgraphs enumeration, such as trees, paths, and matchings, but the problem addresses the subgraph enumeration, such as enumeration of subgraphs that are trees. Their induced subgraph versions have not been studied well. One of few example is for chordless paths and cycles. Our motivation is to reduce the time complexity close to O(1) for each solution. This type of optimal algorithms are proposed many subgraph classes such as trees, and spanning trees. Induced subtrees are fundamental object thus it should be studied deeply and there possibly exist some efficient algorithms. Our algorithm utilizes nice properties of k-degeneracy to state an effective amortized analysis. As a result, the time complexity is reduced to O(k) time per induced subtree. The problem is solved in constant time for each in planar graphs, as a corollary

Efficient Enumeration of Bipartite Subgraphs in Graphs

Subgraph enumeration problems ask to output all subgraphs of an input graph that belongs to the specified graph class or satisfy the given constraint. These problems have been widely studied in theoretical computer science. As far, many efficient enumeration algorithms for the fundamental substructures such as spanning trees, cycles, and paths, have been developed. This paper addresses the enumeration problem of bipartite subgraphs. Even though bipartite graphs are quite fundamental and have numerous applications in both theory and application, its enumeration algorithms have not been intensively studied, to the best of our knowledge. We propose the first non-trivial algorithms for enumerating all bipartite subgraphs in a given graph. As the main results, we develop two efficient algorithms: the one enumerates all bipartite induced subgraphs of a graph with degeneracy $k$ in $O(k)$ time per solution. The other enumerates all bipartite subgraphs in $O(1)$ time per solution

Counting Triangulations and other Crossing-Free Structures Approximately

We consider the problem of counting straight-edge triangulations of a given set $P$ of $n$ points in the plane. Until very recently it was not known whether the exact number of triangulations of $P$ can be computed asymptotically faster than by enumerating all triangulations. We now know that the number of triangulations of $P$ can be computed in $O^{*}(2^{n})$ time, which is less than the lower bound of $\Omega(2.43^{n})$ on the number of triangulations of any point set. In this paper we address the question of whether one can approximately count triangulations in sub-exponential time. We present an algorithm with sub-exponential running time and sub-exponential approximation ratio, that is, denoting by $\Lambda$ the output of our algorithm, and by $c^{n}$ the exact number of triangulations of $P$, for some positive constant $c$, we prove that $c^{n}\leq\Lambda\leq c^{n}\cdot 2^{o(n)}$. This is the first algorithm that in sub-exponential time computes a $(1+o(1))$-approximation of the base of the number of triangulations, more precisely, $c\leq\Lambda^{\frac{1}{n}}\leq(1 + o(1))c$. Our algorithm can be adapted to approximately count other crossing-free structures on $P$, keeping the quality of approximation and running time intact. In this paper we show how to do this for matchings and spanning trees.Comment: 19 pages, 2 figures. A preliminary version appeared at CCCG 201

An Efficient Algorithm for Enumerating Chordless Cycles and Chordless Paths

A chordless cycle (induced cycle) $C$ of a graph is a cycle without any chord, meaning that there is no edge outside the cycle connecting two vertices of the cycle. A chordless path is defined similarly. In this paper, we consider the problems of enumerating chordless cycles/paths of a given graph $G=(V,E),$ and propose algorithms taking $O(|E|)$ time for each chordless cycle/path. In the existing studies, the problems had not been deeply studied in the theoretical computer science area, and no output polynomial time algorithm has been proposed. Our experiments showed that the computation time of our algorithms is constant per chordless cycle/path for non-dense random graphs and real-world graphs. They also show that the number of chordless cycles is much smaller than the number of cycles. We applied the algorithm to prediction of NMR (Nuclear Magnetic Resonance) spectra, and increased the accuracy of the prediction

Counting and Enumerating Crossing-free Geometric Graphs

We describe a framework for counting and enumerating various types of crossing-free geometric graphs on a planar point set. The framework generalizes ideas of Alvarez and Seidel, who used them to count triangulations in time $O(2^nn^2)$ where $n$ is the number of points. The main idea is to reduce the problem of counting geometric graphs to counting source-sink paths in a directed acyclic graph. The following new results will emerge. The number of all crossing-free geometric graphs can be computed in time $O(c^nn^4)$ for some $c < 2.83929$. The number of crossing-free convex partitions can be computed in time $O(2^nn^4)$. The number of crossing-free perfect matchings can be computed in time $O(2^nn^4)$. The number of convex subdivisions can be computed in time $O(2^nn^4)$. The number of crossing-free spanning trees can be computed in time $O(c^nn^4)$ for some $c < 7.04313$. The number of crossing-free spanning cycles can be computed in time $O(c^nn^4)$ for some $c < 5.61804$. With the same bounds on the running time we can construct data structures which allow fast enumeration of the respective classes. For example, after $O(2^nn^4)$ time of preprocessing we can enumerate the set of all crossing-free perfect matchings using polynomial time per enumerated object. For crossing-free perfect matchings and convex partitions we further obtain enumeration algorithms where the time delay for each (in particular, the first) output is bounded by a polynomial in $n$. All described algorithms are comparatively simple, both in terms of their analysis and implementation

Efficient Generation of Stable Planar Cages for Chemistry

In this paper we describe an algorithm which generates all colored planar maps with a good minimum sparsity from simple motifs and rules to connect them. An implementation of this algorithm is available and is used by chemists who want to quickly generate all sound molecules they can obtain by mixing some basic components.Comment: 17 pages, 7 figures. Accepted at the 14th International Symposium on Experimental Algorithms (SEA 2015

On Minimum Average Stretch Spanning Trees in Polygonal 2-trees

A spanning tree of an unweighted graph is a minimum average stretch spanning tree if it minimizes the ratio of sum of the distances in the tree between the end vertices of the graph edges and the number of graph edges. We consider the problem of computing a minimum average stretch spanning tree in polygonal 2-trees, a super class of 2-connected outerplanar graphs. For a polygonal 2-tree on $n$ vertices, we present an algorithm to compute a minimum average stretch spanning tree in $O(n \log n)$ time. This algorithm also finds a minimum fundamental cycle basis in polygonal 2-trees.Comment: 17 pages, 12 figure

Parametric shortest-path algorithms via tropical geometry

We study parameterized versions of classical algorithms for computing shortest-path trees. This is most easily expressed in terms of tropical geometry. Applications include shortest paths in traffic networks with variable link travel times.Comment: 24 pages and 8 figure