A lower bound for computing Oja depth

Let S={s₁,…,sn} be a set of points in the plane. The Oja depth of a query point θ with respect to S is the sum of the areas of all triangles (θ,si,sj). This depth may be computed in O(nlogn) time in the RAM model of computation. We show that a matching lower bound holds in the algebraic decision tree model. This bound also applies to the computation of the Oja gradient, the Oja sign test, and to the problem of computing the sum of pairwise distances among points on a line.     

On the All-Farthest-Segments problem for a planar set of points

In this note, we outline a very simple algorithm for the following problem: Given a set S of n points p₁,p₂,p₃,…,pn in the plane, we have O(n²) segments implicitly defined on pairs of these n points. For each point pi, find a segment from this set of implicitly defined segments that is farthest from pi. The time complexity of our algorithm is in O(nh+nlogn), where n is the number of input points, and h is the number of vertices on the convex hull of S.     

基于改进的差别矩阵的快速属性约简算法

为了解决基于差别矩阵属性约简的计算效率问题,首先以计数排序的思想设计了一个新的计算U/C的高效算法,其时间复杂度降为O(|C||U|)。其次分析了基于差别矩阵的属性约简算法的不足,提出了改进的差别矩阵的定义,利用快速计算核属性算法生成的核属性和出现频率最多的属性来降低差别矩阵的大小,并设计了基于改进的差别矩阵的快速属性约简算法,证明了该新算法的时间复杂度和空间复杂度分别被降为max(O|C|2Σ0≤i相似文献   

Efficient algorithms for regular expression constrained sequence alignment

Imposing constraints is an effective means to incorporate biological knowledge into alignment procedures. As in the PROSITE database, functional sites of proteins can be effectively described as regular expressions. In an alignment of protein sequences it is natural to expect that functional motifs should be aligned together. Due to this motivation, Arslan introduced the regular expression constrained sequence alignment problem and proposed an algorithm which, if implemented naïvely, can take time and space up to O(²|Σ|⁴|V|n²) and O(²|Σ|⁴|V|n), respectively, where Σ is the alphabet, n is the sequence length, and V is the set of states in an automaton equivalent to the input regular expression. In this paper we propose a more efficient algorithm solving this problem which takes O(³|V|n²) time and O(²|V|n) space in the worst case. If |V|=O(logn) we propose another algorithm with time complexity O(²|V|log|V|n²). The time complexity of our algorithms is independent of Σ, which is desirable in protein applications where the formulation of this problem originates; a factor of ²|Σ|=400 in the time complexity of the previously proposed algorithm would significantly affect the efficiency in practice.     

Thek-track assignment problem

Thek-track assignment problem is a scheduling problem withn jobs andk machines. Each machinej has a certain operational period (track) which starts at timea _j and ends at timeb _j . Each jobi has a specific start times _i and a specific finish timet _i . A schedule is an assignment of certain jobs to machines such that the intervals [s _i ,t _i [assigned to the same machinej do not overlap and fit into track [a _j ,b _j [. We are interested in a schedule which maximizes the number of assigned jobs. AO(n ^k?1 k!k ^k+1 )-algorithm which solves this problem is presented. Furthermore it is shown that the more general problem, in which for each track only a given set of jobs can be scheduled on that track, can be solved inO(n ^k k!k ^k )-time.     

Aspect-ratio Voronoi diagram and its complexity bounds

This Letter first defines an aspect ratio of a triangle by the ratio of the longest side over the minimal height. Given a set of line segments, any point p in the plane is associated with the worst aspect ratio for all the triangles defined by the point and the line segments. When a line segment si gives the worst ratio, we say that p is dominated by si. Now, an aspect-ratio Voronoi diagram for a set of line segments is a partition of the plane by this dominance relation. We first give a formal definition of the Voronoi diagram and give O(n2+ε) upper bound and Ω(n²) lower bound on the complexity, where ε is any small positive number. The Voronoi diagram is interesting in itself, and it also has an application to a problem of finding an optimal point to insert into a simple polygon to have a triangulation that is optimal in the sense of the aspect ratio.     

Efficient construction of a bounded-degree spanner with low weight

LetS be a set ofn points in ℝ ^d and lett>1 be a real number. At-spanner forS is a graph having the points ofS as its vertices such that for any pairp, q of points there is a path between them of length at mostt times the Euclidean distance betweenp andq. An efficient implementation of a greedy algorithm is given that constructs at-spanner having bounded degree such that the total length of all its edges is bounded byO (logn) times the length of a minimum spanning tree forS. The algorithm has running timeO (n log ^d n). Applying recent results of Das, Narasimhan, and Salowe to thist-spanner gives anO(n log ^d n)-time algorithm for constructing at-spanner having bounded degree and whose total edge length is proportional to the length of a minimum spanning tree forS. Previously, noo(n ²)-time algorithms were known for constructing at-spanner of bounded degree. In the final part of the paper, an application to the problem of distance enumeration is given. This work was supported by the ESPRIT Basic Research Actions Program, under Contract No. 7141 (Project ALCOM II).     

Fast algorithms for minimum matrix norm with application in computer graphics

In this paper we consider the following problem. Given (r ₁,r ₂, ...,r _n) R ⁿ, for anyI= (I ₁,I ₂,...,I _n) Z ⁿ, letE ₁=(e _ij), wheree _ij=(r _i–r_j)–(I _i–I_j), findI Z ⁿ such that |E _I| is minimized, where |·| is a matrix norm. This problem arises from optimal curve rasterization in computer graphics, where minimum distortion of curve dynamic context is sought. Until now, there has been no polynomial-time solution to this computer graphics problem. We present a very simpleO(n lgn)-time algorithm to solve this problem under various matrix norms.This research was supported by the Natural Sciences and Engineering Research Council of Canada under Grant OGP0046373.     

Labeling points with given rectangles

In this paper, we consider the following problem: Given n pairs of a point and an axis-parallel rectangle in the plane, place each rectangle at each point in order that the point lies on the corner of the rectangle and the rectangles do not intersect. If the size of the rectangles may be enlarged or reduced at the same factor, maximize the factor. This paper generalizes the results of Formann and Wagner [Proc. 7th Annual ACM Symp. on Comput. Geometry (SoCG'91), 1991, pp. 281-288]. They considered the uniform squares case and showed that there is no polynomial time algorithm less than 2-approximation. We present a 2-approximation algorithm of the non-uniform rectangle case which runs in O(n²logn) time and takes O(n²) space. We also show that the decision problem can be solved in O(nlogn) time and space in the RAM model by transforming the problem to a simpler geometric problem.     

Transforming spanning trees and pseudo-triangulations

Let TS be the set of all crossing-free straight line spanning trees of a planar n-point set S. Consider the graph TS where two members T and T^′ of TS are adjacent if T intersects T^′ only in points of S or in common edges. We prove that the diameter of TS is O(logk), where k denotes the number of convex layers of S. Based on this result, we show that the flip graph PS of pseudo-triangulations of S (where two pseudo-triangulations are adjacent if they differ in exactly one edge—either by replacement or by removal) has a diameter of O(nlogk). This sharpens a known O(nlogn) bound. Let be the induced subgraph of pointed pseudo-triangulations of PS. We present an example showing that the distance between two nodes in is strictly larger than the distance between the corresponding nodes in PS.     

Transversal of disjoint convex polygons

Given a set S of n disjoint convex polygons {P_i∣1?i?n} in a plane, each with k_i vertices, the transversal problem is to find, if there exists one, a straight line that goes through every polygon in S. We show that the transversal problem can be solved in O(N+nlogn) time, where N=∑_i=1ⁿk_i is the total number of vertices of the polygons.     

Approximate Pattern Matching with the <Emphasis Type="Italic">L</Emphasis><Subscript>1</Subscript>, <Emphasis Type="Italic">L</Emphasis><Subscript>2</Subscript> and <Emphasis Type="Italic">L</Emphasis><Subscript>∞</Subscript> Metrics

Given an alphabet Σ={1,2,…,|Σ|} text string T∈Σ ⁿ and a pattern string P∈Σ ^m , for each i=1,2,…,n−m+1 define L _p (i) as the p-norm distance when the pattern is aligned below the text and starts at position i of the text. The problem of pattern matching with L _p distance is to compute L _p (i) for every i=1,2,…,n−m+1. We discuss the problem for d=1,2,∞. First, in the case of L ₁ matching (pattern matching with an L ₁ distance) we show a reduction of the string matching with mismatches problem to the L ₁ matching problem and we present an algorithm that approximates the L ₁ matching up to a factor of 1+ε, which has an O(\frac1e²nlogmlog|S|)O(\frac{1}{\varepsilon^{2}}n\log m\log|\Sigma|) run time. Then, the L ₂ matching problem (pattern matching with an L ₂ distance) is solved with a simple O(nlog m) time algorithm. Finally, we provide an algorithm that approximates the L _∞ matching up to a factor of 1+ε with a run time of O(\frac1enlogmlog|S|)O(\frac{1}{\varepsilon}n\log m\log|\Sigma|) . We also generalize the problem of String Matching with mismatches to have weighted mismatches and present an O(nlog ⁴ m) algorithm that approximates the results of this problem up to a factor of O(log m) in the case that the weight function is a metric.     

How good is the information theory bound in sorting?

We define a sorting problem on an n element set S to be a family 〈A₁,…,A_r〉 of disjoint subsets of the set of n! linear orderings on S. Given an ordering ω ∈ ∪_jA_j, we want to determine to which subset A_j the ordering ω belongs by performing a sequence of comparisons between the elements of S. The classical sorting problem corresponds to the case where the subsets A_j comprise the n! singleton sets of orderings.If a sorting problem is defined by r nonempty subsets A_j, then the information theory bound states that at least log₂r comparisons are required to solve that problem in the worst case. The purpose of this paper is to investigate the accuracy of this bound. While we show that it is usually very weak, we are nevertheless able to define a large class of problems for which this bound is good. As an application, we show that if X and Y are n element sets of real numbers, then the n² element set X + Y can be sorted with O (n²) comparisons, improving upon the n² log₂n bound established by Harper et al. The problem of sorting X + Y was posed by Berkelamp.     

Sparse LCS Common Substring Alignment

The “Common Substring Alignment” problem is defined as follows. The input consists of a set of strings S₁,S₂…,S_c, with a common substring appearing at least once in each of them, and a target string T. The goal is to compute similarity of all strings S_i with T, without computing the part of the common substring over and over again.In this paper we consider the Common Substring Alignment problem for the LCS (Longest Common Subsequence) similarity metric. Our algorithm gains its efficiency by exploiting the sparsity inherent to the LCS problem. Let Y be the common substring, n be the size of the compared sequences, L_y be the length of the LCS of T and Y, denoted |LCS[T,Y]|, and L be max{|LCS[T,S_i]|}. Our algorithm consists of an O(nL_y) time encoding stage that is executed once per common substring, and an O(L) time alignment stage that is executed once for each appearance of the common substring in each source string. The additional running time depends only on the length of the parts of the strings that are not in any common substring.     

On finding a widest empty 1-corner corridor

A 1-corner corridor through a set S of points is an open subset of CH(S) containing no points from S and bounded by a pair of parallel polygonal lines each of which contains two segments. Given a set of n points in the plane, we consider the problem of computing a widest empty 1-corner corridor. We describe an algorithm that solves the problem in O(n⁴logn) time and O(n) space. We also present an approximation algorithm that computes in time a solution with width at least a fraction (1−ε) of the optimal, for any small enough ε>0.     

An improved version of the Cocke-Younger-Kasami algorithm

The Cocke-Younger-Kasami algorithm (CYK) always requires 0(n³) time and 0(n²) space to recognize a trial sentence ω = w₁w₂…w_n, given an e-free context-free grammar in Chomsky Normal form. The same inductive rule that underlies the CYK algorithm may be used to produce a variant that computes the same information but requires (1) a maximum of 0(n³) time and 0(n²) space, and (2) only 0(s(n)) space and time for an unambiguous grammar, where s(n) is the number of triples (A,i,j) for which a nonterminal symbol A derives w_iw_i+1…w_i+j?1. In this case, time and space consumed are at worst 0(n²).It is shown in addition, for any grammar, that a parse may be obtained from the table left from the recognition algorithm in time 0(s(n)) whether or not the grammar is ambiguous. The same procedure for the CYK algorithm requires time 0(n²).The performance of our variant is quite similar to that of the Earley algorithm except that the Earley algorithm substitutes for s(n), a function which is usually smaller.The model we use of a RAM is strictly identical to the model used in the CYK algorithm. CR categories: 4.20, 5.23, 5.25.     

An improved algorithm for the red-blue hitting set problem with the consecutive ones property

Let S be a set of elements. We say that a collection C of subsets of S has the consecutive ones property if there exist a linear order on S and a 0-1 matrix M, where Mij=1 if and only if the jth element is in the ith set in C, such that all 1's appear consecutively in each row of M. A set X∈C is hit by a subset S^′⊆S if X∩S^′≠∅. Let Cr (red collection) and Cb (blue collection) be two collections of subsets of S respectively. The red-blue hitting set problem asks for a subset S^′⊆S such that all sets in the blue collection are hit by S^′, while the number of sets in the red collection hit by S^′ has to be minimum. We present a shortest-path based algorithm with time complexity O(|Cb||S|+|Cr||S|+²|S|) for this problem with Cr∪Cb having the consecutive ones property, which improves the previous time bound O(|Cr||Cb|²|S|) by Dom et al. (2008) [8].     

Dominating set is fixed parameter tractable in claw-free graphs

We show that the Dominating Set problem parameterized by solution size is fixed-parameter tractable (FPT) in graphs that do not contain the claw (K_1,3, the complete bipartite graph on four vertices where the two parts have one and three vertices, respectively) as an induced subgraph. We present an algorithm that uses 2^O(k2)n^O(1) time and polynomial space to decide whether a claw-free graph on n vertices has a dominating set of size at most k. Note that this parameterization of Dominating Set is W[2]-hard on the set of all graphs, and thus is unlikely to have an FPT algorithm for graphs in general.The most general class of graphs for which an FPT algorithm was previously known for this parameterization of Dominating Set is the class of K_i,j-free graphs, which exclude, for some fixed i,j∈N, the complete bipartite graph K_i,j as a subgraph. For i,j≥2, the class of claw-free graphs and any class of K_i,j-free graphs are not comparable with respect to set inclusion. We thus extend the range of graphs over which this parameterization of Dominating Set is known to be fixed-parameter tractable.We also show that, in some sense, it is the presence of the claw that makes this parameterization of the Dominating Set problem hard. More precisely, we show that for any t≥4, the Dominating Set problem parameterized by the solution size is W[2]-hard in graphs that exclude the t-claw K_1,t as an induced subgraph. Our arguments also imply that the related Connected Dominating Set and Dominating Clique problems are W[2]-hard in these graph classes.Finally, we show that for any t∈N, the Clique problem parameterized by solution size, which is W[1]-hard on general graphs, is FPT in t-claw-free graphs. Our results add to the small and growing collection of FPT results for graph classes defined by excluded subgraphs, rather than by excluded minors.     

A Simpler and More Efficient Algorithm for the Next-to-Shortest Path Problem

Given an undirected graph G=(V,E) with positive edge lengths and two vertices s and t, the next-to-shortest path problem is to find an st-path which length is minimum amongst all st-paths strictly longer than the shortest path length. In this paper we show that the problem can be solved in linear time if the distances from s and t to all other vertices are given. Particularly our new algorithm runs in O(|V|log|V|+|E|) time for general graphs, which improves the previous result of O(|V|²) time and takes only linear time for unweighted graphs, planar graphs, and graphs with positive integer edge lengths.     

Minimization of the maximal lateness for a single machine

Consideration was given to the classical NP-hard problem 1|r_j|L_max of the scheduling theory. An algorithm to determine the optimal schedule of processing n jobs where the job parameters satisfy a system of linear constraints was presented. The polynomially solvable area of the problem 1|r_j|L_max was expanded. An algorithm was described to construct a Pareto-optimal set of schedules by the criteria L_max and C_max for complexity of O(n³logn) operations.