Genetic embedded matching approach to ground states in continuous-spin systems

Due to an extremely rugged structure of the free energy landscape, the determination of spin-glass ground states is among the hardest known optimization problems, found to be NP-hard in the most general case. Owing to the specific structure of local (free) energy minima, general-purpose optimization strategies perform relatively poorly on these problems, and a number of specially tailored optimization techniques have been developed in particular for the Ising spin glass and similar discrete systems. Here, an efficient optimization heuristic for the much less discussed case of continuous spins is introduced, based on the combination of an embedding of Ising spins into the continuous rotators and an appropriate variant of a genetic algorithm. Statistical techniques for insuring high reliability in finding (numerically) exact ground states are discussed, and the method is benchmarked against the simulated annealing approach.Comment: 17 pages, 12 figures, 1 tabl

Serial section registration of axonal confocal microscopy datasets for long-range neural circuit reconstruction

ManuscriptIn the context of long-range digital neural circuit reconstruction, this paper investigates an approach for registering axons across histological serial sections. Tracing distinctly labeled axons over large distances allows neuroscientists to study very explicit relationships between the brain's complex interconnects and, for example, diseases or aberrant development. Large scale histological analysis requires, however, that the tissue be cut into sections. In immunohistochemical studies thin sections are easily distorted due to the cutting, preparation, and slide mounting processes. In this work we target the registration of thin serial sections containing axons. Sections are first traced to extract axon centerlines, and these traces are used to define registration landmarks where they intersect section boundaries. The trace data also provides distinguishing information regarding an axon's size and orientation within a section. We propose the use of these features when pairing axons across sections in addition to utilizing the spatial relationships amongst the landmarks. The global rotation and translation of an unregistered section are accounted for using a random sample consensus (RANSAC) based technique. An iterative nonrigid refinement process using B-spline warping is then used to reconnect axons and produce the sought after connectivity information

Decomposition of Geometric Set Systems and Graphs

We study two decomposition problems in combinatorial geometry. The first part deals with the decomposition of multiple coverings of the plane. We say that a planar set is cover-decomposable if there is a constant m such that any m-fold covering of the plane with its translates is decomposable into two disjoint coverings of the whole plane. Pach conjectured that every convex set is cover-decomposable. We verify his conjecture for polygons. Moreover, if m is large enough, we prove that any m-fold covering can even be decomposed into k coverings. Then we show that the situation is exactly the opposite in 3 dimensions, for any polyhedron and any $m$ we construct an m-fold covering of the space that is not decomposable. We also give constructions that show that concave polygons are usually not cover-decomposable. We start the first part with a detailed survey of all results on the cover-decomposability of polygons. The second part investigates another geometric partition problem, related to planar representation of graphs. The slope number of a graph G is the smallest number s with the property that G has a straight-line drawing with edges of at most s distinct slopes and with no bends. We examine the slope number of bounded degree graphs. Our main results are that if the maximum degree is at least 5, then the slope number tends to infinity as the number of vertices grows but every graph with maximum degree at most 3 can be embedded with only five slopes. We also prove that such an embedding exists for the related notion called slope parameter. Finally, we study the planar slope number, defined only for planar graphs as the smallest number s with the property that the graph has a straight-line drawing in the plane without any crossings such that the edges are segments of only s distinct slopes. We show that the planar slope number of planar graphs with bounded degree is bounded.Comment: This is my PhD thesi

Iterated function systems and shape representation

We propose the use of iterated function systems as an isomorphic shape representation scheme for use in a machine vision environment. A concise description of the basic theory and salient characteristics of iterated function systems is presented and from this we develop a formal framework within which to embed a representation scheme. Concentrating on the problem of obtaining automatically generated two-dimensional encodings we describe implementations of two solutions. The first is based on a deterministic algorithm and makes simplifying assumptions which limit its range of applicability. The second employs a novel formulation of a genetic algorithm and is intended to function with general data input. Keywords: Machine Vision, Shape Representation, Iterated Function Systems, Genetic Algorithms