Linearizing Genomes: Exact Methods and Local Search

被引：0

作者：

Davot, Tom ^{[1
]}

Chateau, Annie ^{[1
]}

Giroudeau, Rodolphe ^{[1
]}

Weller, Mathias ^{[2
]}

机构：

[1] LIRMM CNRS UMR 5506, Montpellier, France

[2] LIGM UMR 8049, CNRS, Champs sur Marne, France

来源：

SOFSEM 2020: THEORY AND PRACTICE OF COMPUTER SCIENCE | 2020年 / 12011卷

关键词：

FRAMEWORK;

D O I：

10.1007/978-3-030-38919-2_41

中图分类号：

TP301 [理论、方法];

学科分类号：

081202 ;

摘要：

In this article, we address the problem of genome linearization from the perspective of Polynomial Local Search, a complexity class related to finding local optima. We prove that the linearization problem, with a neighborhood structure, the neighbor slide, is PLS-complete. On the positive side, we develop two exact methods, one using tree decompositions with an efficient dynamic programming, the other using an integer linear programming. Finally, we compare them on real instances.

引用

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页码：505 / 518

页数：14

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