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Space-Efficient STR-IC-LCS Computation 空间高效的STR-IC-LCS计算
Pub Date : 2022-10-14 DOI: 10.48550/arXiv.2210.07979
Yuuki Yonemoto, Yuto Nakashima, Shunsuke Inenaga, H. Bannai
One of the most fundamental method for comparing two given strings A and B is the longest common subsequence (LCS), where the task is to find (the length) of the longest common subsequence. In this paper, we address the STR-IC-LCS problem which is one of the constrained LCS problems proposed by Chen and Chao [J. Comb. Optim, 2011]. A string Z is said to be an STR-IC-LCS of three given strings A , B , and P , if Z is one of the longest common subsequences of A and B that contains P as a substring. We present a space efficient solution for the STR-IC-LCS problem. Our algorithm computes the length of an STR-IC-LCS in O ( n 2 ) time and O (( (cid:96) + 1)( n − (cid:96) + 1)) space where (cid:96) is the length of a longest common subsequence of A and B of length n . When (cid:96) = O (1) or n − (cid:96) = O (1), then our algorithm uses only linear O ( n ) space.
比较两个给定字符串A和B的最基本方法之一是最长公共子序列(LCS),其中的任务是找到(长度)最长公共子序列。本文研究的STR-IC-LCS问题是Chen和Chao [J]提出的约束LCS问题之一。梳子。Optim, 2011]。如果Z是包含P作为子字符串的A和B的最长公共子序列之一,则称字符串Z是三个给定字符串A, B和P的STR-IC-LCS。我们提出了一种空间高效的STR-IC-LCS问题解决方案。我们的算法在O (n2)时间和O ((cid:96) + 1)(n−(cid:96) + 1))空间中计算STR-IC-LCS的长度,其中(cid:96)是长度为n的a和B的最长公共子序列的长度。当(cid:96) = O(1)或n - (cid:96) = O(1)时,则我们的算法仅使用线性O (n)空间。
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引用次数: 1
Visualizing Multispecies Coalescent Trees: Drawing Gene Trees Inside Species Trees 可视化多物种聚结树:在物种树内绘制基因树
Pub Date : 2022-10-13 DOI: 10.48550/arXiv.2210.06744
J. Klawitter, Felix Klesen, Moritz Niederer, A. Wolff
. We consider the problem of drawing multiple gene trees inside a single species tree in order to visualize multispecies coalescent trees. Specifically, the drawing of the species tree fills a rectangle in which each of its edges is represented by a smaller rectangle, and the gene trees are drawn as rectangular cladograms (that is, orthogonally and down-ward, with one bend per edge) inside the drawing of the species tree. As an alternative, we also consider a style where the widths of the edges of the species tree are proportional to given effective population sizes. In order to obtain readable visualizations, our aim is to minimize the number of crossings between edges of the gene trees in such drawings. We show that planar instances can be recognized in linear time and that the general problem is NP-hard. Therefore, we introduce two heuristics and give an integer linear programming (ILP) formulation that provides us with exact solutions in exponential time. We use the ILP to measure the quality of the heuristics on real-world instances. The heuristics yield surprisingly good solutions, and the ILP runs surprisingly fast.
. 为了可视化多物种聚结树,我们考虑了在单个物种树中绘制多个基因树的问题。具体来说,物种树的绘图填充了一个矩形,其中每个边都由一个较小的矩形表示,基因树在物种树的绘图中被绘制为矩形的梯形图(即,垂直向下,每个边有一个弯曲)。作为一种选择,我们还考虑了一种样式,其中物种树的边缘宽度与给定的有效种群大小成正比。为了获得可读的可视化,我们的目标是尽量减少基因树边缘之间的交叉次数。我们证明了平面实例可以在线性时间内被识别,并且一般问题是np困难的。因此,我们引入了两种启发式方法,并给出了一个整数线性规划(ILP)公式,该公式为我们提供了指数时间内的精确解。我们使用ILP来衡量真实世界实例上启发式的质量。启发式算法产生了令人惊讶的好解决方案,ILP的运行速度也令人惊讶地快。
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引用次数: 2
Morphing Planar Graph Drawings Through 3D 通过3D变形平面图形绘图
Pub Date : 2022-10-11 DOI: 10.48550/arXiv.2210.05384
K. Buchin, W. Evans, Fabrizio Frati, I. Kostitsyna, M. Löffler, Tim Ophelders, A. Wolff
. In this paper, we investigate crossing-free 3D morphs between planar straight-line drawings. We show that, for any two (not necessarily topologically equivalent) planar straight-line drawings of an n -vertex planar graph, there exists a piecewise-linear crossing-free 3D morph with O ( n 2 ) steps that transforms one drawing into the other. We also give some evidence why it is difficult to obtain a linear lower bound (which exists in 2D) for the number of steps of a crossing-free 3D morph.
。本文研究平面直线图之间的无交叉三维变形。我们证明,对于任意两个(不一定是拓扑等价的)n顶点平面图的平面直线图,存在一个O (n 2)步的分段线性无交叉3D变形,将一个图转换为另一个图。我们也给出了一些证据,为什么很难获得一个线性下界(存在于二维)的步骤数的一个无交叉的三维变形。
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引用次数: 1
Parameterized Approaches to Orthogonal Compaction 正交压实的参数化方法
Pub Date : 2022-10-10 DOI: 10.48550/arXiv.2210.05019
W. Didimo, Siddharth Gupta, P. Kindermann, G. Liotta, A. Wolff, M. Zehavi
Orthogonal graph drawings are used in applications such as UML diagrams, VLSI layout, cable plans, and metro maps. We focus on drawing planar graphs and assume that we are given an emph{orthogonal representation} that describes the desired shape, but not the exact coordinates of a drawing. Our aim is to compute an orthogonal drawing on the grid that has minimum area among all grid drawings that adhere to the given orthogonal representation. This problem is called orthogonal compaction (OC) and is known to be NP-hard, even for orthogonal representations of cycles [Evans et al., 2022]. We investigate the complexity of OC with respect to several parameters. Among others, we show that OC is fixed-parameter tractable with respect to the most natural of these parameters, namely, the number of emph{kitty corners} of the orthogonal representation: the presence of pairs of kitty corners in an orthogonal representation makes the OC problem hard. Informally speaking, a pair of kitty corners is a pair of reflex corners of a face that point at each other. Accordingly, the number of kitty corners is the number of corners that are involved in some pair of kitty corners.
正交图用于UML图、VLSI布局、电缆计划和地铁地图等应用程序。我们专注于绘制平面图形,并假设我们得到了描述所需形状的emph{正交表示},但不是绘图的确切坐标。我们的目标是在所有遵循给定正交表示的网格图中计算出面积最小的网格正交图。这个问题被称为正交压缩(OC),即使对于循环的正交表示也是np困难的[Evans等人,2022]。我们研究了OC相对于几个参数的复杂性。其中,我们证明了OC对于这些最自然的参数,即正交表示的emph{kitty角}的数量是固定参数可处理的:正交表示中kitty角对的存在使OC问题变得困难。非正式地说,一对猫咪角是一对互相指向对方的面部反射角。因此,猫咪角的数量是一些猫咪角对所涉及的角的数量。
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引用次数: 0
Delivery to Safety with Two Cooperating Robots 两个协作机器人的安全配送
Pub Date : 2022-10-08 DOI: 10.48550/arXiv.2210.04080
Jared R Coleman, E. Kranakis, D. Krizanc, Oscar Morales Ponce
Two cooperating, autonomous mobile robots with arbitrary nonzero max speeds are placed at arbitrary initial positions in the plane. A remotely detonated bomb is discovered at some source location and must be moved to a safe distance away from its initial location as quickly as possible. In the Bomb Squad problem, the robots cooperate by communicating face-to-face in order to pick up the bomb from the source and carry it away to the boundary of a disk centered at the source in the shortest possible time. The goal is to specify trajectories which define the robots' paths from start to finish and their meeting points which enable face-to-face collaboration by exchanging information and passing the bomb from robot to robot. We design algorithms reflecting the robots' knowledge about orientation and each other's speed and location. In the offline case, we design an optimal algorithm. For the limited knowledge cases, we provide online algorithms which consider robots' level of agreement on orientation as per OneAxis and NoAxis models, and knowledge of the boundary as per Visible, Discoverable, and Invisible. In all cases, we provide upper and lower bounds for the competitive ratios of the online problems.
将两个具有任意非零最大速度的协作自主移动机器人放置在平面上的任意初始位置。远程引爆的炸弹被发现在某个源头位置,必须尽快移动到远离其初始位置的安全距离。在炸弹小队问题中,机器人通过面对面交流的方式进行合作,以便在最短的时间内从源头捡起炸弹,并将其带到以源头为中心的圆盘的边界。目标是指定轨迹,定义机器人从开始到结束的路径和它们的交汇点,通过交换信息和在机器人之间传递炸弹来实现面对面的协作。我们设计的算法反映了机器人对方向、彼此的速度和位置的了解。在离线情况下,我们设计了一个最优算法。对于有限的知识情况,我们提供了在线算法,该算法根据OneAxis和NoAxis模型考虑机器人在方向上的一致程度,以及根据可见、可发现和不可见的边界知识。在所有情况下,我们都提供了在线问题竞争比的上界和下界。
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引用次数: 2
A spectral algorithm for finding maximum cliques in dense random intersection graphs 稠密随机相交图中寻找最大团的谱算法
Pub Date : 2022-10-05 DOI: 10.48550/arXiv.2210.02121
Filippos Christodoulou, S. Nikoletseas, C. Raptopoulos, P. Spirakis
In a random intersection graph $G_{n,m,p}$, each of $n$ vertices selects a random subset of a set of $m$ labels by including each label independently with probability $p$ and edges are drawn between vertices that have at least one label in common. Among other applications, such graphs have been used to model social networks, in which individuals correspond to vertices and various features (e.g. ideas, interests) correspond to labels; individuals sharing at least one common feature are connected and this is abstracted by edges in random intersection graphs. In this paper, we consider the problem of finding maximum cliques when the input graph is $G_{n,m,p}$. Current algorithms for this problem are successful with high probability only for relatively sparse instances, leaving the dense case mostly unexplored. We present a spectral algorithm for finding large cliques that processes vertices according to respective values in the second largest eigenvector of the adjacency matrix of induced subgraphs of the input graph corresponding to common neighbors of small cliques. Leveraging on the Single Label Clique Theorem from [15], we were able to construct random instances, without the need to externally plant a large clique in the input graph. In particular, we used label choices to determine the maximum clique and then concealed label information by just giving the adjacency matrix of $G_{n, m, p}$ as input to the algorithm. Our experimental evaluation showed that our spectral algorithm clearly outperforms existing polynomial time algorithms, both with respect to the failure probability and the approximation guarantee metrics, especially in the dense regime, thus suggesting that spectral properties of random intersection graphs may be also used to construct efficient algorithms for other NP-hard graph theoretical problems as well.
在一个随机相交图$G_{n,m,p}$中,$n$顶点中的每一个都以$p$的概率独立包含每个标签,从而选择$m$标签集合中的一个随机子集,并且在至少有一个共同标签的顶点之间绘制边。在其他应用中,这样的图已经被用来模拟社会网络,其中个体对应于顶点,各种特征(例如想法,兴趣)对应于标签;具有至少一个共同特征的个体是连通的,这是用随机相交图中的边抽象出来的。本文研究了当输入图为$G_{n,m,p}$时,求最大团的问题。目前这个问题的算法只有在相对稀疏的情况下才有高概率成功,而在密集的情况下大多没有被探索。我们提出了一种用于寻找大团的谱算法,该算法根据与小团的共同邻居对应的输入图的诱导子图邻接矩阵的第二大特征向量中的相应值处理顶点。利用[15]中的单标签团定理,我们能够构建随机实例,而不需要在输入图中外部植入一个大的团。特别是,我们使用标签选择来确定最大团,然后通过仅将邻接矩阵$G_{n, m, p}$作为算法的输入来隐藏标签信息。我们的实验评估表明,我们的谱算法在失效概率和近似保证度量方面明显优于现有的多项式时间算法,特别是在密集区域,这表明随机相交图的谱性质也可以用于构建其他NP-hard图理论问题的高效算法。
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引用次数: 0
More Effort Towards Multiagent Knapsack 对多智能体背包的进一步努力
Pub Date : 2022-08-04 DOI: 10.48550/arXiv.2208.02766
Sushmita Gupta, P. Jain, Sanjay Seetharaman
In this paper, we study some multiagent variants of the knapsack problem. Fluschnik et al. [AAAI 2019] considered the model in which every agent assigns some utility to every item. They studied three preference aggregation rules for finding a subset (knapsack) of items: individually best, diverse, and Nash-welfare-based. Informally, diversity is achieved by satisfying as many voters as possible. Motivated by the application of aggregation operators in multiwinner elections, we extend the study from diverse aggregation rule to Median and Best scoring functions. We study the computational and parameterized complexity of the problem with respect to some natural parameters, namely, the number of voters, the number of items, and the distance from an easy instance. We also study the complexity of the problem under domain restrictions. Furthermore, we present significantly faster parameterized algorithms with respect to the number of voters for the diverse aggregation rule.
本文研究了背包问题的一些多智能体变体。Fluschnik等人[AAAI 2019]考虑了每个代理为每个项目分配一些效用的模型。他们研究了寻找物品子集(背包)的三种偏好聚合规则:个体最佳、多样化和基于纳什福利。非正式地,多样性是通过满足尽可能多的选民来实现的。受聚合算子在多赢家选举中的应用启发,我们将多元聚合规则的研究扩展到中值和最佳评分函数。我们研究了该问题的计算和参数化复杂性,涉及一些自然参数,即选民的数量,项目的数量,以及与一个简单实例的距离。我们还研究了在域限制下问题的复杂性。此外,我们提出了相对于不同聚合规则的投票人数量的更快的参数化算法。
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引用次数: 0
Multi-Parameter Analysis of Finding Minors and Subgraphs in Edge Periodic Temporal Graphs 边周期时间图中查找子图和子图的多参数分析
Pub Date : 2022-03-14 DOI: 10.48550/arXiv.2203.07401
Emmanuel Arrighi, Niels Gruttemeier, Nils Morawietz, Frank Sommer, Petra Wolf
We study the computational complexity of determining structural properties of edge periodic temporal graphs (EPGs). EPGs are time-varying graphs that compactly represent periodic behavior of components of a dynamic network, for example, train schedules on a rail network. In EPGs, for each edge $e$ of the graph, a binary string $s_e$ determines in which time steps the edge is present, namely $e$ is present in time step $t$ if and only if $s_e$ contains a $1$ at position $t mod |s_e|$. Due to this periodicity, EPGs serve as very compact representations of complex periodic systems and can even be exponentially smaller than classic temporal graphs representing one period of the same system, as the latter contain the whole sequence of graphs explicitly. In this paper, we study the computational complexity of fundamental questions of the new concept of EPGs such as what is the shortest traversal time between two vertices; is there a time step in which the graph (1) is minor-free; (2) contains a minor; (3) is subgraph-free; (4) contains a subgraph; with respect to a given minor or subgraph. We give a detailed parameterized analysis for multiple combinations of parameters for the problems stated above including several parameterized algorithms.
研究了确定边缘周期时间图(EPGs)结构性质的计算复杂度。epg是时变图,它紧凑地表示动态网络组件的周期性行为,例如,铁路网络上的列车时刻表。在EPGs中,对于图的每条边$e$,一个二进制字符串$s_e$决定了这条边出现在哪个时间步长,即$e$出现在时间步长$t$当且仅当$s_e$在位置$t mod |s_e|$上包含$1$。由于这种周期性,epg作为复杂周期系统的非常紧凑的表示,甚至可以比表示同一系统的一个周期的经典时间图指数小,因为后者显式地包含了整个图序列。在本文中,我们研究了epg新概念的基本问题的计算复杂度,如两个顶点之间的最短穿越时间是多少;是否存在图(1)不存在次元的时间步长;(二)有未成年人的;(3)无子图;(4)包含子图;相对于一个给定的子图或子图。我们对上述问题的多个参数组合进行了详细的参数化分析,包括几种参数化算法。
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引用次数: 0
On the Complexity of Scheduling Problems with a Fixed Number of Parallel Identical Machines 具有固定数量的平行相同机器的调度问题的复杂性
Pub Date : 2022-02-16 DOI: 10.1007/978-3-031-23101-8_13
K. Jansen, K. Kahler
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引用次数: 0
Sorting by Multi-cut Rearrangements 多切口重排排序
Pub Date : 2021-05-29 DOI: 10.1007/978-3-030-67731-2_43
L. Bulteau, G. Fertin, Géraldine Jean, Christian Komusiewicz
{"title":"Sorting by Multi-cut Rearrangements","authors":"L. Bulteau, G. Fertin, Géraldine Jean, Christian Komusiewicz","doi":"10.1007/978-3-030-67731-2_43","DOIUrl":"https://doi.org/10.1007/978-3-030-67731-2_43","url":null,"abstract":"","PeriodicalId":266155,"journal":{"name":"Conference on Current Trends in Theory and Practice of Informatics","volume":"64 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2021-05-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"117259652","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 3
期刊
Conference on Current Trends in Theory and Practice of Informatics
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