Going weighted: Parameterized algorithms for cluster editing

被引:45
作者
Boecker, S. [1 ]
Briesemeister, S. [2 ]
Bui, Q. B. A. [1 ]
Truss, A. [1 ]
机构
[1] Univ Jena, Lehrstuhl Bioinformat, D-07743 Jena, Germany
[2] Univ Tubingen, Div Simulat Biol Syst, ZBIT WSI, D-72074 Tubingen, Germany
关键词
Exact algorithms; Fixed-parameter tractability; Data clustering;
D O I
10.1016/j.tcs.2009.05.006
中图分类号
TP301 [理论、方法];
学科分类号
081202 ;
摘要
The goal Of the CLUSTER EDITING problem is to make the fewest changes to the edge set of an input graph such that the resulting graph is a disjoint union Of cliques. This problem is NP-complete but recently, several parameterized algorithms have been proposed. In this paper, we present a number of surprisingly simple search tree algorithms for WEIGHTED CLUSTER EDITING assuming that edge insertion and deletion costs are positive integers. We show that the smallest search tree has size O(1.82(k)) for edit cost k, resulting in the currently fastest parameterized algorithm, both for this problem and its unweighted counterpart. We have implemented and compared our algorithms, and achieved promising results.(1) (C) 2009 Elsevier B.V. All rights reserved.
引用
收藏
页码:5467 / 5480
页数:14
相关论文
共 18 条
[1]  
BOCKER S, 2008, SERIES ADV BIOINFORM, V5
[2]  
Bodlaender Hans L, 2006, Technical Report UUCS- 2006-052
[3]  
Boecker S, 2008, LECT NOTES COMPUT SC, V5038, P289, DOI 10.1007/978-3-540-68552-4_22
[4]  
BRIESEMEISTER S, 2007, THESIS F SCHILLER U
[5]  
Dehne F, 2006, LECT NOTES COMPUT SC, V4169, P13
[6]   Graph-modeled data clustering:: Exact algorithms for clique generation [J].
Gramm, J ;
Guo, J ;
Hüffner, F ;
Niedermeier, R .
THEORY OF COMPUTING SYSTEMS, 2005, 38 (04) :373-392
[7]   Automated generation of search tree algorithms for hard graph modification problems [J].
Gramm, J ;
Guo, J ;
Hüffner, F ;
Niedermeier, R .
ALGORITHMICA, 2004, 39 (04) :321-347
[8]   A CUTTING PLANE ALGORITHM FOR A CLUSTERING PROBLEM [J].
GROTSCHEL, M ;
WAKABAYASHI, Y .
MATHEMATICAL PROGRAMMING, 1989, 45 (01) :59-96
[9]   A more effective linear kernelization for cluster editing [J].
Guo, Jiong .
THEORETICAL COMPUTER SCIENCE, 2009, 410 (8-10) :718-726
[10]   NP-HARD PROBLEMS IN HIERARCHICAL-TREE CLUSTERING [J].
KRIVANEK, M ;
MORAVEK, J .
ACTA INFORMATICA, 1986, 23 (03) :311-323