Unit Interval Editing is Fixed-Parameter Tractable
Yixin Cao
备注：
An extended abstract of this paper has appeared in the proceedings of ICALP 2015. Update: The proof of Lemma 4.2 has been completely rewritten; an appendix is provided for a brief overview of related graph classes
Given a graph~$G$ and integers $k_1$, $k_2$, and~$k_3$, the unit interval editing problem asks whether $G$ can be transformed into a unit interval graph by at most $k_1$ vertex deletions, $k_2$ edge deletions, and $k_3$ edge additions. We give an algorithm solving this problem in time $2^{O(k\log k)}\cdot (n+m)$, where $k := k_1 + k_2 + k_3$, and $n, m$ denote respectively the numbers of vertices and edges of $G$. Therefore, it is fixed-parameter tractable parameterized by the total number of allowed operations.
Our algorithm implies the fixed-parameter tractability of the unit interval edge deletion problem, for which we also present a more efficient algorithm running in time $O(4^k \cdot (n + m))$. Another result is an $O(6^k \cdot (n + m))$-time algorithm for the unit interval vertex deletion problem, significantly improving the algorithm of van 't Hof and Villanger, which runs in time $O(6^k \cdot n^6)$.
Graph modification problems are typically asked as follows: is there a small set of operations that transforms a given graph to have a certain property. The most commonly considered operations include vertex deletion, edge deletion, and edge addition; for the same property, one can define significantly different versions by allowing different operations. We study a very general graph modification problem which allows all three types of operations: given a graph $G$ and integers $k_1$, $k_2$, and $k_3$, the \textsc{chordal editing} problem asks whether $G$ can be transformed into a chordal grap…
A binary matrix $M$ has the consecutive ones property ($C1P$) for rows (resp. columns) if there is a permutation of its columns (resp. rows) that arranges the ones consecutively in all the rows (resp. columns). If $M$ has the $C1P$ for rows and columns, then $M$ is said to have the simultaneous consecutive ones property ($SC1P$). In this article, we consider the classical complexity and fixed-parameter tractability of $(a)$ Simultaneous Consecutive Ones Submatrix ($SC1S$) and $(b)$ Simultaneous Consecutive Ones Editing ($SC1E$) [Oswald et al., Theoretical Comp. Sci. 410(21-23):1986-1992, \hype…
We study the minimum \emph{interval deletion} problem, which asks for the removal of a set of at most $k$ vertices to make a graph of $n$ vertices into an interval graph. We present a parameterized algorithm of runtime $10^k \cdot n^{O(1)}$ for this problem, that is, we show the problem is fixed-parameter tractable.
Editing a graph into a disjoint union of clusters is a standard optimization task in graph-based data clustering. Here, complementing classic work where the clusters shall be cliques, we focus on clusters that shall be 2-clubs, that is, subgraphs of diameter two. This naturally leads to the two NP-hard problems 2-Club Cluster Editing (the allowed editing operations are edge insertion and edge deletion) and 2-Club Cluster Vertex Deletion (the allowed editing operations are vertex deletions). Answering an open question from the literature, we show that 2-Club Cluster Editing is W[2]-hard with re…
Quasi-threshold graphs are $\{C_4, P_4\}$-free graphs, i.e., they do not contain any cycle or path of four nodes as an induced subgraph. We study the $\{C_4, P_4\}$-free editing problem, which is the problem of finding a minimum number of edge insertions or deletions to transform an input graph into a quasi-threshold graph. This problem is NP-hard but fixed-parameter tractable (FPT) in the number of edits by using a branch-and-bound algorithm and admits a simple integer linear programming formulation (ILP). Both methods are also applicable to the general $F$-free editing problem for any finite…
A binary matrix $M$ has the Consecutive Ones Property (COP) if there exists a permutation of columns that arranges the ones consecutively in all the rows. Given a matrix, the $d$-COS-R problem is to determine if there exists a set of at most $d$ rows whose deletion results in a matrix with COP. We consider the parameterized complexity of this problem with respect to the number $d$ of rows to be deleted as the parameter. The closely related Interval Deletion problem has recently shown to be FPT [Y. Cao and D. Marx, Interval Deletion is Fixed-Parameter Tractable, arXiv:1211.5933 [cs.DS],2012]. I…
It is known that the problem of deleting at most k vertices to obtain a proper interval graph (Proper Interval Vertex Deletion) is fixed parameter tractable. However, whether the problem admits a polynomial kernel or not was open. Here, we answers this question in affirmative by obtaining a polynomial kernel for Proper Interval Vertex Deletion. This resolves an open question of van Bevern, Komusiewicz, Moser, and Niedermeier.
The aim of edge editing or modification problems is to change a given graph by adding and deleting of a small number of edges in order to satisfy a certain property. We consider the Edge Editing to a Connected Graph of Given Degrees problem that asks for a graph G, non-negative integers d,k and a function δ:V(G)->{1,...,d}, whether it is possible to obtain a connected graph G' from G such that the degree of v is δ(v) for any vertex v by at most k edge editing operations. As the problem is NP-complete even if δ(v)=2, we are interested in the parameterized complexity and show that Edge Editing t…
In the Proper Interval Vertex Deletion problem (PIVD for short), we are given a graph $G$ and an integer parameter $k>0$, and the question is whether there are at most $k$ vertices in $G$ whose removal results in a proper interval graph. It is known that the PIVD problem is fixed-parameter tractable and admits a polynomial but "unreasonably" large kernel of $O(k^{53})$ vertices. A natural question is whether the problem admits a polynomial kernel of "reasonable" size. In this paper, we answer this question by deriving an $O(k^7)$-vertex kernel for the PIVD problem. Our kernelization is based o…
We consider the problems of finding optimal identifying codes, (open) locating-dominating sets and resolving sets (denoted IDENTIFYING CODE, (OPEN) LOCATING-DOMINATING SET and METRIC DIMENSION) of an interval or a permutation graph. In these problems, one asks to distinguish all vertices of a graph by a subset of the vertices, using either the neighbourhood within the solution set or the distances to the solution vertices. Using a general reduction for this class of problems, we prove that the decision problems associated to these four notions are NP-complete, even for interval graphs of diame…
Reciprocal best match graphs (RBMGs) are vertex colored graphs whose vertices represent genes and the colors the species where the genes reside. Edges identify pairs of genes that are most closely related with respect to an underlying evolutionary tree. In practical applications this tree is unknown and the edges of the RBMGs are inferred by quantifying sequence similarity. Due to noise in the data, these empirically determined graphs in general violate the condition of being a ``biologically feasible'' RBMG. Therefore, it is of practical interest in computational biology to correct the initia…
We develop a new framework for generalizing approximation algorithms from the structural graph algorithm literature so that they apply to graphs somewhat close to that class (a scenario we expect is common when working with real-world networks) while still guaranteeing approximation ratios. The idea is to $\textit{edit}$ a given graph via vertex- or edge-deletions to put the graph into an algorithmically tractable class, apply known approximation algorithms for that class, and then $\textit{lift}$ the solution to apply to the original graph. We give a general characterization of when an optimi…
For a graph class $\mathcal{C}$, the $\mathcal{C}$-Edge-Deletion problem asks for a given graph $G$ to delete the minimum number of edges from $G$ in order to obtain a graph in $\mathcal{C}$. We study the $\mathcal{C}$-Edge-Deletion problem for $\mathcal{C}$ the permutation graphs, interval graphs, and other related graph classes. It follows from Courcelle's Theorem that these problems are fixed parameter tractable when parameterized by treewidth. In this paper, we present concrete FPT algorithms for these problems. By giving explicit algorithms and analyzing these in detail, we obtain algorit…
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Let $\mbox{interval} + k v$, $\mbox{interval} + k e$, and $\mbox{interval} - k e$ denote the classes of graphs that can be obtained from some interval graph by adding $k$ vertices, adding $k$ edges, and deleting $k$ edges, respectively. When $k$ is small, these graph classes are called almost interval graphs. They are well motivated from computational biology, where the data ought to be represented by an interval graph while we can only expect an almost interval graph for the best. For any fixed $k$, we give linear-time algorithms for recognizing all these classes, and in the case of membershi…
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Numerous applications in scheduling, such as resource allocation or steel manufacturing, can be modeled using the NP-hard Independent Set problem (given an undirected graph and an integer k, find a set of at least k pairwise non-adjacent vertices). Here, one encounters special graph classes like 2-union graphs (edge-wise unions of two interval graphs) and strip graphs (edge-wise unions of an interval graph and a cluster graph), on which Independent Set remains NP-hard but admits constant-ratio approximations in polynomial time. We study the parameterized complexity of Independent Set on 2-unio…
Algorithms and complexity for geodetic sets on interval and chordal graphs
University of Leeds（利兹大学）；Indian Statistical Institute（印度统计研究所）；Université Clermont Auvergne（克莱蒙奥弗涅大学）；Grenoble-INP（格勒诺布尔国立理工学院）；Ben-Gurion University of the Negev（内盖夫本-古里安大学）；Indian Institute of Technology Delhi（德里印度理工学院）；Univ. Bordeaux（波尔多大学）
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