11 research outputs found

    Preprocessing for Outerplanar Vertex Deletion: An Elementary Kernel of Quartic Size

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    In the ?-Minor-Free Deletion problem one is given an undirected graph G, an integer k, and the task is to determine whether there exists a vertex set S of size at most k, so that G-S contains no graph from the finite family ? as a minor. It is known that whenever ? contains at least one planar graph, then ?-Minor-Free Deletion admits a polynomial kernel, that is, there is a polynomial-time algorithm that outputs an equivalent instance of size k^{?(1)} [Fomin, Lokshtanov, Misra, Saurabh; FOCS 2012]. However, this result relies on non-constructive arguments based on well-quasi-ordering and does not provide a concrete bound on the kernel size. We study the Outerplanar Deletion problem, in which we want to remove at most k vertices from a graph to make it outerplanar. This is a special case of ?-Minor-Free Deletion for the family ? = {K?, K_{2,3}}. The class of outerplanar graphs is arguably the simplest class of graphs for which no explicit kernelization size bounds are known. By exploiting the combinatorial properties of outerplanar graphs we present elementary reduction rules decreasing the size of a graph. This yields a constructive kernel with ?(k?) vertices and edges. As a corollary, we derive that any minor-minimal obstruction to having an outerplanar deletion set of size k has ?(k?) vertices and edges

    On unrooted and root-uncertain variants of several well-known phylogenetic network problems

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    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. embeds) an \emph{unrooted} phylogenetic tree, is NP-hard. On the positive side we show that this problem is FPT in reticulation number. In the rooted case the corresponding FPT result is trivial, but here we require more subtle argumentation. Next we show that the hybridization number problem for unrooted networks (when given two unrooted trees) is equivalent to the problem of computing the Tree Bisection and Reconnect (TBR) distance of the two unrooted trees. In the third part of the paper we consider the "root uncertain" variant of hybridization number. Here we are free to choose the root location in each of a set of unrooted input trees such that the hybridization number of the resulting rooted trees is minimized. On the negative side we show that this problem is APX-hard. On the positive side, we show that the problem is FPT in the hybridization number, via kernelization, for any number of input trees.Comment: 28 pages, 8 Figure

    Serial and parallel kernelization of Multiple Hitting Set parameterized by the Dilworth number, implemented on the GPU

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    The NP-hard Multiple Hitting Set problem is finding a minimum-cardinality set intersecting each of the sets in a given input collection a given number of times. Generalizing a well-known data reduction algorithm due to Weihe, we show a problem kernel for Multiple Hitting Set parameterized by the Dilworth number, a graph parameter introduced by Foldes and Hammer in 1978 yet seemingly so far unexplored in the context of parameterized complexity theory. Using matrix multiplication, we speed up the algorithm to quadratic sequential time and logarithmic parallel time. We experimentally evaluate our algorithms. By implementing our algorithm on GPUs, we show the feasability of realizing kernelization algorithms on SIMD (Single Instruction, Multiple Date) architectures.Comment: Added experiments on one more data se

    Parameterized Algorithms for Finding Large Sparse Subgraphs:Kernelization and Beyond

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    Finding Secluded Places of Special Interest in Graphs

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    Finding a vertex subset in a graph that satisfies a certain property is one of the most-studied topics in algorithmic graph theory. The focus herein is often on minimizing or maximizing the size of the solution, that is, the size of the desired vertex set. In several applications, however, we also want to limit the "exposure" of the solution to the rest of the graph. This is the case, for example, when the solution represents persons that ought to deal with sensitive information or a segregated community. In this work, we thus explore the (parameterized) complexity of finding such secluded vertex subsets for a wide variety of properties that they shall fulfill. More precisely, we study the constraint that the (open or closed) neighborhood of the solution shall be bounded by a parameter and the influence of this constraint on the complexity of minimizing separators, feedback vertex sets, F-free vertex deletion sets, dominating sets, and the maximization of independent sets

    On Unrooted and Root-Uncertain Variants of Several Well-Known Phylogenetic Network Problems

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    International audienceThe 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 thisend we study a number of relaxed variants of this problem. We start by showing that the fundamental problem of determining whether an unrooted phylogenetic network displays (i.e. embeds) an unrooted phylogenetic tree, is NP-hard. On the positive side we show that this problem is FPT in reticulation number. In the rooted case the corresponding FPT result is trivial, but here we require more subtle argumentation. Next we show that the hybridization number problem for unrooted networks (when given two unrooted trees) is equivalent to the problem of computing the tree bisection and reconnect distance of the two unrooted trees. In the third part of the paper we consider the “root uncertain” variant of hybridization number. Here we are free to choose the root location in each of a set of unrooted input trees such that the hybridization number of the resulting rooted trees is minimized. On the negative side we show that this problem is APX-hard. On the positive side, we show that the problem is FPT in the hybridization number, via kernelization, for any number of input trees
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