Related papers: The Gapped $k$-Deck Problem

For all integers $k\geq 3$, we give an $O(n^4)$ time algorithm for the problem whose instance is a graph $G$ of girth at least $k$ together with $k$ vertices and whose question is "Does $G$ contains an induced subgraph containing the $k$…

\textsc{Densest $k$-Subgraph} is the problem to find a vertex subset $S$ of size $k$ such that the number of edges in the subgraph induced by $S$ is maximized. In this paper, we show that \textsc{Densest $k$-Subgraph} is fixed parameter…

Given a graph G = (V,E) and a parameter k, we consider the problem of finding a subset U in V of size k that maximizes the number of induced edges (DkS). We improve upon the previously best known approximation ratio for DkS, a ratio that…

The recently introduced longest common substring with $k$-mismatches ($k$-LCF) problem is to find, given two sequences $S_1$ and $S_2$ of length $n$ each, a longest substring $A_1$ of $S_1$ and $A_2$ of $S_2$ such that the Hamming distance…

This study investigates whether reoptimization can help in solving the closest substring problem. We are dealing with the following reoptimization scenario. Suppose, we have an optimal l-length closest substring of a given set of sequences…

In the k-arc connected subgraph problem, we are given a directed graph G and an integer k and the goal is the find a subgraph of minimum cost such that there are at least k-arc disjoint paths between any pair of vertices. We give a simple…

In this paper, we introduce a problem closely related to the Cage Problem and the Degree Diameter Problem. For integers $k\geq 2$, $g\geq 3$ and $d\geq 1$, we define a $(k;\, g,d)$-graph to be a $k$-regular graph with girth $g$ and diameter…

In Gapped String Indexing, the goal is to compactly represent a string $S$ of length $n$ such that for any query consisting of two strings $P_1$ and $P_2$, called patterns, and an integer interval $[\alpha, \beta]$, called gap range, we can…

String Kernel (SK) techniques, especially those using gapped $k$-mers as features (gk), have obtained great success in classifying sequences like DNA, protein, and text. However, the state-of-the-art gk-SK runs extremely slow when we…

The classic string indexing problem is to preprocess a string $S$ into a compact data structure that supports efficient subsequent pattern matching queries, that is, given a pattern string $P$, report all occurrences of $P$ within $S$. In…

The minimum k-partition problem is a challenging combinatorial problem with a diverse set of applications ranging from telecommunications to sports scheduling. It generalizes the max-cut problem and has been extensively studied since the…

Given a collection of planar graphs $G_1,\dots,G_k$ on the same set $V$ of $n$ vertices, the simultaneous geometric embedding (with mapping) problem, or simply $k$-SGE, is to find a set $P$ of $n$ points in the plane and a bijection $\phi:…

Recently, many studies have been devoted to finding diverse solutions in classical combinatorial problems, such as Vertex Cover (Baste et al., IJCAI'20), Matching (Fomin et al., ISAAC'20) and Spanning Tree (Hanaka et al., AAAI'21). We…

We revisit the exact shortest unique substring (SUS) finding problem, and propose its approximate version where mismatches are allowed, due to its applications in subfields such as computational biology. We design a generic in-place…

Let $G$ be an additive finite abelian group, and let $\mathrm{disc}(G)$ denote the smallest positive integer $t$ with the property that every sequence $S$ over $G$ with length $|S|\geq t $ contains two nonempty zero-sum subsequences of…

In the longest common substring problem, we are given two strings of length $n$ and must find a substring of maximal length that occurs in both strings. It is well known that the problem can be solved in linear time, but the solution is not…

Two permutations $s$ and $t$ are $k$-similar if they can be decomposed into subpermutations $s^1, \ldots, s^k$ and $t^1, \ldots, t^k$ such that $s^i$ is order-isomorphic to $t^i$ for all $i$. Recently, Dudek, Grytczuk and Ruci\'nski posed…

A $(\delta\geq k_1,\delta\geq k_2)$-partition of a graph $G$ is a vertex-partition $(V_1,V_2)$ of $G$ satisfying that $\delta(G[V_i])\geq k_i$ for $i=1,2$. We determine, for all positive integers $k_1,k_2$, the complexity of deciding…

We consider the problem of identifying tandem scattered subsequences within a string. Our algorithm identifies a longest subsequence which occurs twice without overlap in a string. This algorithm is based on the Hunt-Szymanski algorithm,…

The text-to-pattern Hamming distances problem asks to compute the Hamming distances between a given pattern of length $m$ and all length-$m$ substrings of a given text of length $n\ge m$. We focus on the $k$-mismatch version of the problem,…