On the solution bound of two-sided scaffold filling

被引:1
|
作者
Ma, Jingjing [1 ]
Zhu, Daming [1 ]
Jiang, Haitao [1 ]
Zhu, Binhai [2 ]
机构
[1] Shandong Univ, Sch Comp Sci & Technol, Qingdao 266237, Shandong, Peoples R China
[2] Montana State Univ, Dept Comp Sci, Bozeman, MT 59717 USA
关键词
Algorithm; Complexity; Performance ratio; Genome; Scaffold; EXEMPLAR BREAKPOINT DISTANCE; ALGORITHM;
D O I
10.1016/j.tcs.2021.04.024
中图分类号
TP301 [理论、方法];
学科分类号
081202 ;
摘要
In this paper, we propose an algorithm which approximates the Two-Sided Scaffold Filling problem to a performance ratio 1.4+epsilon. This is achieved through a deep investigation of the optimal solution structure of Two-Sided Scaffold Filling. We make use of a relevant graph aiming at a solution of a Two-Sided Scaffold Filling instance, and evaluate the optimal solution value by the number of connected components in this graph. We show that an arbitrary optimal solution can be transformed into one whose relevant graph admits connected components that are available to compare with the solution of our algorithm in terms of their values. The performance ratio 1.4 + epsilon is obtained by comparing the bound of such an optimal solution with the solution of our algorithm. (C) 2021 Elsevier B.V. All rights reserved.
引用
收藏
页码:47 / 63
页数:17
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