The three-in-a-tree problem asks for an induced tree of the input graph containing three mandatory vertices. In 2006, Chudnovsky and Seymour [Combinatorica, 2010] presented the first polynomial time algorithm for this problem, which has become a critical subroutine in many algorithms for detecting induced subgraphs, such as beetles, pyramids, thetas, and even and odd-holes. In 2007, Derhy and Picouleau [Discrete Applied Mathematics, 2009] considered the natural generalization to $k$ mandatory vertices, proving that, when $k$ is part of the input, the problem is $\mathsf{NP}$-complete, and ask what is the complexity of four-in-a-tree. Motivated by this question and the relevance of the original problem, we study the parameterized complexity of $k$-in-a-tree. We begin by showing that the problem is $\mathsf{W[1]}$-hard when jointly parameterized by the size of the solution and minimum clique cover and, under the Exponential Time Hypothesis, does not admit an $n^{o(k)}$ time algorithm. Afterwards, we use Courcelle's Theorem to prove fixed-parameter tractability under cliquewidth, which prompts our investigation into which parameterizations admit single exponential algorithms; we show that such algorithms exist for the unrelated parameterizations treewidth, distance to cluster, and distance to co-cluster. In terms of kernelization, we present a linear kernel under feedback edge set, and show that no polynomial kernel exists under vertex cover nor distance to clique unless $\mathsf{NP} \subseteq \mathsf{coNP}/\mathsf{poly}$. Along with other remarks and previous work, our tractability and kernelization results cover many of the most commonly employed parameters in the graph parameter hierarchy.
Let F be a finite set of graphs. In the F-Deletion problem, we are given an n-vertex graph G and an integer k as input, and asked whether at most k vertices can be deleted from G such that the resulting graph does not contain a graph from F as a minor. F-Deletion is a generic problem and by selecting different sets of forbidden minors F, one can obtain various fundamental problems such as Vertex Cover, Feedback Vertex Set or Treewidth t-Deletion. In this paper we obtain a number of generic algorithmic results about Planar F-Deletion, when F contains at least one planar graph. The highlights of…
In Maximum $k$-Vertex Cover (Max $k$-VC), the input is an edge-weighted graph $G$ and an integer $k$, and the goal is to find a subset $S$ of $k$ vertices that maximizes the total weight of edges covered by $S$. Here we say that an edge is covered by $S$ iff at least one of its endpoints lies in $S$. We present an FPT approximation scheme (FPT-AS) that runs in $(1/ε)^{O(k)} poly(n)$ time for the problem, which improves upon Gupta et al.'s $(k/ε)^{O(k)} poly(n)$-time FPT-AS [SODA'18, FOCS'18]. Our algorithm is simple: just use brute force to find the best $k$-vertex subset among the $O(k/ε)$ ve…
A matching cut is a partition of the vertex set of a graph into two sets $A$ and $B$ such that each vertex has at most one neighbor in the other side of the cut. The MATCHING CUT problem asks whether a graph has a matching cut, and has been intensively studied in the literature. Motivated by a question posed by Komusiewicz et al. [IPEC 2018], we introduce a natural generalization of this problem, which we call $d$-CUT: for a positive integer $d$, a $d$-cut is a bipartition of the vertex set of a graph into two sets $A$ and $B$ such that each vertex has at most $d$ neighbors across the cut. We …
In the Vertex Cover problem we are given a graph $G=(V,E)$ and an integer $k$ and have to determine whether there is a set $X\subseteq V$ of size at most $k$ such that each edge in $E$ has at least one endpoint in $X$. The problem can be easily solved in time $O^*(2^k)$, making it fixed-parameter tractable (FPT) with respect to $k$. While the fastest known algorithm takes only time $O^*(1.2738^k)$, much stronger improvements have been obtained by studying parameters that are smaller than $k$. Apart from treewidth-related results, the arguably best algorithm for Vertex Cover runs in time $O^*(2…
An r-pseudoforest is a graph in which each component can be made into a forest by deleting at most r edges, and a d-quasi-forest is a graph in which each component can be made into a forest by deleting at most d vertices. In this paper, we study the parameterized tractability of deleting minimum number of vertices to obtain r-pseudoforest and d-quasi-forest, generalizing the well studied feedback vertex set problem. We first provide improved FPT algorithm and kernelization results for the r-pseudoforest deletion problem and then we show that the d-quasi-forest deletion problem is also FPT.
The Treewidth-2 Vertex Deletion problem asks whether a set of at most $t$ vertices can be removed from a graph, such that the resulting graph has treewidth at most two. A graph has treewidth at most two if and only if it does not contain a $K_4$ minor. Hence, this problem corresponds to the NP-hard $\mathcal{F}$-Minor Cover problem with $\mathcal{F} = \{K_4\}$. For any variant of the $\mathcal{F}$-Minor Cover problem where $\mathcal{F}$ contains a planar graph, it is known that a polynomial kernel exists. I.e., a preprocessing routine that in polynomial time outputs an equivalent instance of s…
We study the CONNECTED η-TREEDEPTH DELETION problem where the input instance is an undireted graph G = (V, E) and an integer k. The objective is to decide if G has a set S \subseteq V(G) of at most k vertices such that G - S has treedepth at most ηand G[S] is connected. As this problem naturally generalizes the well-known CONNECTED VERTEX COVER, when parameterized by solution size k, the CONNECTED η-TREEDEPTH DELETION does not admit polynomial kernel unless NP \subseteq coNP/poly. This motivates us to design an approximate kernel of polynomial size for this problem. In this paper, we show that…
The CONNECTED VERTEX COVER problem asks for a vertex cover in a graph that induces a connected subgraph. The problem is known to be fixed-parameter tractable (FPT), and is unlikely to have a polynomial sized kernel (under complexity theoretic assumptions) when parameterized by the solution size. In a recent paper, Lokshtanov et al.[STOC 2017], have shown an $α$-approximate kernel for the problem for every $α> 1$, in the framework of approximate or lossy kernelization. In this work, we exhibit lossy kernels and FPT algorithms for CONNECTED VERTEX COVER for parameters that are more natural and f…
A graph $G$ is called a \emph{block graph} if each maximal $2$-connected component of $G$ is a clique. In this paper we study the Block Graph Vertex Deletion from the perspective of fixed parameter tractable (FPT) and kernelization algorithm. In particular, an input to Block Graph Vertex Deletion consists of a graph $G$ and a positive integer $k$ and the objective to check whether there exists a subset $S \subseteq V(G)$ of size at most $k$ such that the graph induced on $V(G)\setminus S$ is a block graph. In this paper we give an FPT algorithm with running time $4^kn^{O(1)}$ and a polynomial …
We extend the notion of lossy kernelization, introduced by Lokshtanov et al. [STOC 2017], to approximate Turing kernelization. An $α$-approximate Turing kernel for a parameterized optimization problem is a polynomial-time algorithm that, when given access to an oracle that outputs $c$-approximate solutions in $O(1)$ time, obtains an $(α\cdot c)$-approximate solution to the considered problem, using calls to the oracle of size at most $f(k)$ for some function $f$ that only depends on the parameter. Using this definition, we show that Independent Set parameterized by treewidth $\ell$ has a $(1+\…
We consider the problem of firefighting to save a critical subset of nodes. The firefighting game is a turn-based game played on a graph, where the fire spreads to vertices in a breadth-first manner from a source, and firefighters can be placed on yet unburnt vertices on alternate rounds to block the fire. In this work, we consider the problem of saving a critical subset of nodes from catching fire, given a total budget on the number of firefighters. We show that the problem is para-NP-hard when parameterized by the size of the critical set. We also show that it is fixed-parameter tractable on…
Meta-theorems for polynomial (linear) kernels have been the subject of intensive research in parameterized complexity. Heretofore, meta-theorems for linear kernels exist on graphs of bounded genus, $H$-minor-free graphs, and $H$-topological-minor-free graphs. To the best of our knowledge, no meta-theorems for polynomial kernels are known for any larger sparse graph classes; e.g., for classes of bounded expansion or for nowhere dense ones. In this paper we prove such meta-theorems for the two latter cases. More specifically, we show that graph problems that have finite integer index (FII) have …
In this paper, we propose an algorithm that, given an undirected graph $G$ of $m$ edges and an integer $k$, computes a graph $G'$ and an integer $k'$ in $O(k^4 m)$ time such that (1) the size of the graph $G'$ is $O(k^2)$, (2) $k'\leq k$, and (3) $G$ has a feedback vertex set of size at most $k$ if and only if $G'$ has a feedback vertex set of size at most $k'$. This is the first linear-time polynomial-size kernel for Feedback Vertex Set. The size of our kernel is $2k^2+k$ vertices and $4k^2$ edges, which is smaller than the previous best of $4k^2$ vertices and $8k^2$ edges. Thus, we improve t…
In 1996, Bodlaender showed the celebrated result that an optimal tree decomposition of a graph of bounded treewidth can be found in linear time. The algorithm is based on an algorithm of Bodlaender and Kloks that computes an optimal tree decomposition given a non-optimal tree decomposition of bounded width. Both algorithms, in particular the second, are hardly accessible. In our review, we present them in a much simpler way than the original presentations. In our description of the second algorithm, we start by explaining how all tree decompositions of subtrees defined by the nodes of the give…
Many graph problems were first shown to be fixed-parameter tractable using the results of Robertson and Seymour on graph minors. We show that the combination of finite, computable, obstruction sets and efficient order tests is not just one way of obtaining strongly uniform FPT algorithms, but that all of FPT may be captured in this way. Our new characterization of FPT has a strong connection to the theory of kernelization, as we prove that problems with polynomial kernels can be characterized by obstruction sets whose elements have polynomial size. Consequently we investigate the interplay bet…
Parallel parameterized complexity theory studies how fixed-parameter tractable (fpt) problems can be solved in parallel. Previous theoretical work focused on parallel algorithms that are very fast in principle, but did not take into account that when we only have a small number of processors (between 2 and, say, 1024), it is more important that the parallel algorithms are work-efficient. In the present paper we investigate how work-efficient fpt algorithms can be designed. We review standard methods from fpt theory, like kernelization, search trees, and interleaving, and prove trade-offs for t…
We consider the multiple traveling salesman problem on a weighted tree. In this problem there are $m$ salesmen located at the root initially. Each of them will visit a subset of vertices and return to the root. The goal is to assign a tour to every salesman such that every vertex is visited and the longest tour among all salesmen is minimized. The problem is equivalent to the subtree cover problem, in which we cover a tree with rooted subtrees such that the weight of the maximum weighted subtree is minimized. The classical machine scheduling problem can be viewed as a special case of our probl…
The treedepth of a graph $G$ is the least possible depth of an elimination forest of $G$: a rooted forest on the same vertex set where every pair of vertices adjacent in $G$ is bound by the ancestor/descendant relation. We propose an algorithm that given a graph $G$ and an integer $d$, either finds an elimination forest of $G$ of depth at most $d$ or concludes that no such forest exists; thus the algorithm decides whether the treedepth of $G$ is at most $d$. The running time is $2^{O(d^2)}\cdot n^{O(1)}$ and the space usage is polynomial in $n$. Further, by allowing randomization, the time and…
We study the algorithmic properties of the graph class Chordal-ke, that is, graphs that can be turned into a chordal graph by adding at most k edges or, equivalently, the class of graphs of fill-in at most k. We discover that a number of fundamental intractable optimization problems being parameterized by k admit subexponential algorithms on graphs from Chordal-ke. We identify a large class of optimization problems on Chordal-ke that admit algorithms with the typical running time 2^{O(\sqrt{k}\log k)}\cdot n^{O(1)}. Examples of the problems from this class are finding an independent set of max…
In phylogenetics, a central problem is to infer the evolutionary relationships between a set of species $X$; these relationships are often depicted via a phylogenetic tree -- a tree having its leaves univocally labeled by elements of $X$ and without degree-2 nodes -- called the "species tree". One common approach for reconstructing a species tree consists in first constructing several phylogenetic trees from primary data (e.g. DNA sequences originating from some species in $X$), and then constructing a single phylogenetic tree maximizing the "concordance" with the input trees. The so-obtained …
We give an algebraic, determinant-based algorithm for the K-Cycle problem, i.e., the problem of finding a cycle through a set of specified elements. Our approach gives a simple FPT algorithm for the problem, matching the $O^*(2^{|K|})$ running time of the algorithm of Björklund et al. (SODA, 2012). Furthermore, our approach is open for treatment by classical algebraic tools (e.g., Gaussian elimination), and we show that it leads to a polynomial compression of the problem, i.e., a polynomial-time reduction of the $K$-Cycle problem into an algebraic problem with coding size $O(|K|^3)$. This is s…
We describe a kernel of size 9k-8 for the NP-hard problem of computing the Tree Bisection and Reconnect (TBR) distance k between two unrooted binary phylogenetic trees. We achieve this by extending the existing portfolio of reduction rules with three novel new reduction rules. Two of the rules are based on the idea of topologically transforming the trees in a distance-preserving way in order to guarantee execution of earlier reduction rules. The third rule extends the local neighbourhood approach introduced in (Kelk and Linz, Annals of Combinatorics 24(3), 2020) to more global structures, allo…
The {\sc $k$-Leaf Out-Branching} problem is to find an out-branching (i.e. a rooted oriented spanning tree) with at least $k$ leaves in a given digraph. The problem has recently received much attention from the viewpoint of parameterized algorithms {alonLNCS4596,AlonFGKS07fsttcs,BoDo2,KnLaRo}. In this paper we step aside and take a kernelization based approach to the {\sc $k$-Leaf-Out-Branching} problem. We give the first polynomial kernel for {\sc Rooted $k$-Leaf-Out-Branching}, a variant of {\sc $k$-Leaf-Out-Branching} where the root of the tree searched for is also a part of the input. Our …
For a fixed finite family of graphs $\mathcal{F}$, the $\mathcal{F}$-Minor-Free Deletion problem takes as input a graph $G$ and an integer $\ell$ and asks whether there exists a set $X \subseteq V(G)$ of size at most $\ell$ such that $G-X$ is $\mathcal{F}$-minor-free. For $\mathcal{F}=\{K_2\}$ and $\mathcal{F}=\{K_3\}$ this encodes Vertex Cover and Feedback Vertex Set respectively. When parameterized by the feedback vertex number of $G$ these two problems are known to admit a polynomial kernelization. Such a polynomial kernelization also exists for any $\mathcal{F}$ containing a planar graph b…
For a hereditary graph class $\mathcal{H}$, the $\mathcal{H}$-elimination distance of a graph $G$ is the minimum number of rounds needed to reduce $G$ to a member of $\mathcal{H}$ by removing one vertex from each connected component in each round. The $\mathcal{H}$-treewidth of a graph $G$ is the minimum, taken over all vertex sets $X$ for which each connected component of $G - X$ belongs to $\mathcal{H}$, of the treewidth of the graph obtained from $G$ by replacing the neighborhood of each component of $G-X$ by a clique and then removing $V(G) \setminus X$. These parameterizations recently at…
For a graph class ${\cal H}$, the graph parameters elimination distance to ${\cal H}$ (denoted by ${\bf ed}_{\cal H}$) [Bulian and Dawar, Algorithmica, 2016], and ${\cal H}$-treewidth (denoted by ${\bf tw}_{\cal H}$) [Eiben et al. JCSS, 2021] aim to minimize the treedepth and treewidth, respectively, of the "torso" of the graph induced on a modulator to the graph class ${\cal H}$. Here, the torso of a vertex set $S$ in a graph $G$ is the graph with vertex set $S$ and an edge between two vertices $u, v \in S$ if there is a path between $u$ and $v$ in $G$ whose internal vertices all lie outside …
The F-Minor-Free Deletion problem asks, for a fixed set F and an input consisting of a graph G and integer k, whether k vertices can be removed from G such that the resulting graph does not contain any member of F as a minor. This paper analyzes to what extent provably effective and efficient preprocessing is possible for F-Minor-Free Deletion. Fomin et al. (FOCS 2012) showed that the special case Planar F-Deletion (when F contains at least one planar graph) has a kernel of size f(F) * k^{g(F)} for some functions f and g. The degree g of the polynomial grows very quickly; it is not even known …
We study the problem of finding a temporal hybridization network for a set of phylogenetic trees that minimizes the number of reticulations. First, we introduce an FPT algorithm for this problem on an arbitrary set of $m$ binary trees with $n$ leaves each with a running time of $O(5^k\cdot n\cdot m)$, where $k$ is the minimum temporal hybridization number. We also present the concept of temporal distance, which is a measure for how close a tree-child network is to being temporal. Then we introduce an algorithm for computing a tree-child network with temporal distance at most $d$ and at most $k…
We study the recently introduced Connected Feedback Vertex Set (CFVS) problem from the view-point of parameterized algorithms. CFVS is the connected variant of the classical Feedback Vertex Set problem and is defined as follows: given a graph G=(V,E) and an integer k, decide whether there exists a subset F of V, of size at most k, such that G[V F] is a forest and G[F] is connected. We show that Connected Feedback Vertex Set can be solved in time $O(2^{O(k)}n^{O(1)})$ on general graphs and in time $O(2^{O(\sqrt{k}\log k)}n^{O(1)})$ on graphs excluding a fixed graph H as a minor. Our result on g…
University of Copenhagen（哥本哈根大学）；Department of Computer Science, University of California Santa Barbara（加州大学圣塔芭芭拉分校计算机科学系）；The Institute of Mathematical Sciences, HBNI（HBNI数学科学研究所）
Phylogenetic trees illustrate the evolutionary history of genes and species. In most cases, although genes evolve along with the species they belong to, a species tree and gene tree are not identical, because of evolutionary events at the gene level like duplication or transfer. These differences are handled by phylogenetic reconciliation, which formally is a mapping between gene tree nodes and species tree nodes and branches. We investigate models of reconciliation with a gene transfer that replaces existing gene, which is a biological important event but never included in reconciliation mode…
In the non-uniform sparsest cut problem, we are given a supply graph G and a demand graph D, both with the same set of nodes V. The goal is to find a cut of V that minimizes the ratio of the total capacity on the edges of G crossing the cut over the total demand of the crossing edges of D. In this work, we study the non-uniform sparsest cut problem for supply graphs with bounded treewidth k. For this case, Gupta, Talwar and Witmer [STOC 2013] obtained a 2-approximation with polynomial running time for fixed k, and the question of whether there exists a c-approximation algorithm for a constant …
In the Tree Deletion Set problem the input is a graph G together with an integer k. The objective is to determine whether there exists a set S of at most k vertices such that G-S is a tree. The problem is NP-complete and even NP-hard to approximate within any factor of OPT^c for any constant c. In this paper we give a O(k^4) size kernel for the Tree Deletion Set problem. To the best of our knowledge our result is the first counterexample to the "conventional wisdom" that kernelization algorithms automatically provide approximation algorithms with approximation ratio close to the size of the ke…
The hybridization number problem requires us to embed a set of binary rooted phylogenetic trees into a binary rooted phylogenetic network such that the number of nodes with indegree two is minimized. However, from a biological point of view accurately inferring the root location in a phylogenetic tree is notoriously difficult and poor root placement can artificially inflate the hybridization number. To this end we study a number of relaxed variants of this problem. We start by showing that the fundamental problem of determining whether an \emph{unrooted} phylogenetic network displays (i.e. emb…
Many hard graph problems can be solved efficiently when restricted to graphs of bounded treewidth, and more generally to graphs of bounded clique-width. But there is a price to be paid for this generality, exemplified by the four problems MaxCut, Graph Coloring, Hamiltonian Cycle and Edge Dominating Set that are all FPT parameterized by treewidth but none of which can be FPT parameterized by clique-width unless FPT = W[1], as shown by Fomin et al [7, 8]. We therefore seek a structural graph parameter that shares some of the generality of clique-width without paying this price. Based on splits,…
The recently introduced graph parameter tree-cut width plays a similar role with respect to immersions as the graph parameter treewidth plays with respect to minors. In this paper, we provide the first algorithmic applications of tree-cut width to hard combinatorial problems. Tree-cut width is known to be lower-bounded by a function of treewidth, but it can be much larger and hence has the potential to facilitate the efficient solution of problems that are not known to be fixed-parameter tractable (FPT) when parameterized by treewidth. We introduce the notion of nice tree-cut decompositions an…
Kernelization is a theoretical formalization of efficient preprocessing for NP-hard problems. Empirically, preprocessing is highly successful in practice, for example in state-of-the-art ILP-solvers like CPLEX. Motivated by this, previous work studied the existence of kernelizations for ILP related problems, e.g., for testing feasibility of Ax <= b. In contrast to the observed success of CPLEX, however, the results were largely negative. Intuitively, practical instances have far more useful structure than the worst-case instances used to prove these lower bounds. In the present paper, we study…
Grid graphs, and, more generally, $k\times r$ grid graphs, form one of the most basic classes of geometric graphs. Over the past few decades, a large body of works studied the (in)tractability of various computational problems on grid graphs, which often yield substantially faster algorithms than general graphs. Unfortunately, the recognition of a grid graph is particularly hard -- it was shown to be NP-hard even on trees of pathwidth 3 already in 1987. Yet, in this paper, we provide several positive results in this regard in the framework of parameterized complexity (additionally, we present …
The tree-cut width of a graph is a graph parameter defined by Wollan [J. Comb. Theory, Ser. B, 110:47-66, 2015] with the help of tree-cut decompositions. In certain cases, tree-cut width appears to be more adequate than treewidth as an invariant that, when bounded, can accelerate the resolution of intractable problems. While designing algorithms for problems with bounded tree-cut width, it is important to have a parametrically tractable way to compute the exact value of this parameter or, at least, some constant approximation of it. In this paper we give a parameterized 2-approximation algorit…
There are many classical problems in P whose time complexities have not been improved over the past decades. Recent studies of "Hardness in P" have revealed that, for several of such problems, the current fastest algorithm is the best possible under some complexity assumptions. To bypass this difficulty, Fomin et al. (SODA 2017) introduced the concept of fully polynomial FPT algorithms. For a problem with the current best time complexity $O(n^c)$, the goal is to design an algorithm running in $k^{O(1)}n^{c'}$ time for a parameter $k$ and a constant $c'<c$. In this paper, we investigate the com…
The Secluded Path problem models a situation where a sensitive information has to be transmitted between a pair of nodes along a path in a network. The measure of the quality of a selected path is its exposure, which is the total weight of vertices in its closed neighborhood. In order to minimize the risk of intercepting the information, we are interested in selecting a secluded path, i.e. a path with a small exposure. Similarly, the Secluded Steiner Tree problem is to find a tree in a graph connecting a given set of terminals such that the exposure of the tree is minimized. The problems were …
The Connected Vertex Cover problem, where the goal is to compute a minimum set of vertices in a given graph which forms a vertex cover and induces a connected subgraph, is a fundamental combinatorial problem and has received extensive attention in various subdomains of algorithmics. In the area of kernelization, it is known that this problem is unlikely to have efficient preprocessing algorithms, also known as polynomial kernelizations. However, it has been shown in a recent work of Lokshtanov et al. [STOC 2017] that if one considered an appropriate notion of approximate kernelization, then th…
We show that the Minimal Length-Bounded L-But problem can be computed in linear time with respect to L and the tree-width of the input graph as parameters. In this problem the task is to find a set of edges of a graph such that after removal of this set, the shortest path between two prescribed vertices is at least L long. We derive an FPT algorithm for a more general multi-commodity length bounded cut problem when parameterized by the number of terminals also. For the former problem we show a W[1]-hardness result when the parameterization is done by the path-width only (instead of the tree-wi…
We study the parameterized complexity of various classic vertex-deletion problems such as Odd cycle transversal, Vertex planarization, and Chordal vertex deletion under hybrid parameterizations. Existing FPT algorithms for these problems either focus on the parameterization by solution size, detecting solutions of size $k$ in time $f(k) \cdot n^{O(1)}$, or width parameterizations, finding arbitrarily large optimal solutions in time $f(w) \cdot n^{O(1)}$ for some width measure $w$ like treewidth. We unify these lines of research by presenting FPT algorithms for parameterizations that can simult…
