Searching edges in the overlap of two plane graphs

Consider a pair of plane straight-line graphs, whose edges are colored red and blue, respectively, and let n be the total complexity of both graphs. We present a O(n log n)-time O(n)-space technique to preprocess such pair of graphs, that enables efficient searches among the red-blue intersections along edges of one of the graphs. Our technique has a number of applications to geometric problems. This includes: (1) a solution to the batched red-blue search problem [Dehne et al. 2006] in O(n log n) queries to the oracle; (2) an algorithm to compute the maximum vertical distance between a pair of 3D polyhedral terrains one of which is convex in O(n log n) time, where n is the total complexity of both terrains; (3) an algorithm to construct the Hausdorff Voronoi diagram of a family of point clusters in the plane in O((n+m) log^3 n) time and O(n+m) space, where n is the total number of points in all clusters and m is the number of crossings between all clusters; (4) an algorithm to construct the farthest-color Voronoi diagram of the corners of n axis-aligned rectangles in O(n log^2 n) time; (5) an algorithm to solve the stabbing circle problem for n parallel line segments in the plane in optimal O(n log n) time. All these results are new or improve on the best known algorithms.Comment: 22 pages, 6 figure

Next Generation Cluster Editing

This work aims at improving the quality of structural variant prediction from the mapped reads of a sequenced genome. We suggest a new model based on cluster editing in weighted graphs and introduce a new heuristic algorithm that allows to solve this problem quickly and with a good approximation on the huge graphs that arise from biological datasets

Analysis of approximate nearest neighbor searching with clustered point sets

We present an empirical analysis of data structures for approximate nearest neighbor searching. We compare the well-known optimized kd-tree splitting method against two alternative splitting methods. The first, called the sliding-midpoint method, which attempts to balance the goals of producing subdivision cells of bounded aspect ratio, while not producing any empty cells. The second, called the minimum-ambiguity method is a query-based approach. In addition to the data points, it is also given a training set of query points for preprocessing. It employs a simple greedy algorithm to select the splitting plane that minimizes the average amount of ambiguity in the choice of the nearest neighbor for the training points. We provide an empirical analysis comparing these two methods against the optimized kd-tree construction for a number of synthetically generated data and query sets. We demonstrate that for clustered data and query sets, these algorithms can provide significant improvements over the standard kd-tree construction for approximate nearest neighbor searching.Comment: 20 pages, 8 figures. Presented at ALENEX '99, Baltimore, MD, Jan 15-16, 199

Sparse geometric graphs with small dilation

Given a set S of n points in R^D, and an integer k such that 0 <= k < n, we show that a geometric graph with vertex set S, at most n - 1 + k edges, maximum degree five, and dilation O(n / (k+1)) can be computed in time O(n log n). For any k, we also construct planar n-point sets for which any geometric graph with n-1+k edges has dilation Omega(n/(k+1)); a slightly weaker statement holds if the points of S are required to be in convex position

Witness (Delaunay) Graphs

Proximity graphs are used in several areas in which a neighborliness relationship for input data sets is a useful tool in their analysis, and have also received substantial attention from the graph drawing community, as they are a natural way of implicitly representing graphs. However, as a tool for graph representation, proximity graphs have some limitations that may be overcome with suitable generalizations. We introduce a generalization, witness graphs, that encompasses both the goal of more power and flexibility for graph drawing issues and a wider spectrum for neighborhood analysis. We study in detail two concrete examples, both related to Delaunay graphs, and consider as well some problems on stabbing geometric objects and point set discrimination, that can be naturally described in terms of witness graphs.Comment: 27 pages. JCCGG 200

Edge Routing with Ordered Bundles

Edge bundling reduces the visual clutter in a drawing of a graph by uniting the edges into bundles. We propose a method of edge bundling drawing each edge of a bundle separately as in metro-maps and call our method ordered bundles. To produce aesthetically looking edge routes it minimizes a cost function on the edges. The cost function depends on the ink, required to draw the edges, the edge lengths, widths and separations. The cost also penalizes for too many edges passing through narrow channels by using the constrained Delaunay triangulation. The method avoids unnecessary edge-node and edge-edge crossings. To draw edges with the minimal number of crossings and separately within the same bundle we develop an efficient algorithm solving a variant of the metro-line crossing minimization problem. In general, the method creates clear and smooth edge routes giving an overview of the global graph structure, while still drawing each edge separately and thus enabling local analysis