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Motivated by the study of genome rearrangements, the NP-hard Minimum Common String Partition problems asks, given two strings, to split both strings into an identical set of blocks. We consider an extension of this problem to unbalanced…
Random access to highly compressed strings -- represented by straight-line programs or Lempel-Ziv parses, for example -- is a well-studied topic. Random access to such strings in strongly sublogarithmic time is impossible in the worst case,…
Two-stage stochastic mixed-integer programming (SMIP) problems with general integer variables in the second-stage are generally difficult to solve. This paper develops the theory of integer set reduction for characterizing the subset of the…
The constrained synchronization problem (CSP) asks for a synchronizing word of a given input automaton contained in a regular set of constraints. It could be viewed as a special case of synchronization of a discrete event system under…
Finding the common subsequences of $L$ multiple strings has many applications in the area of bioinformatics, computational linguistics, and information retrieval. A well-known result states that finding a Longest Common Subsequence (LCS)…
Linear programming is a powerful method in combinatorial optimization with many applications in theory and practice. For solving a linear program quickly it is desirable to have a formulation of small size for the given problem. A useful…
In this paper, we design $MC^2$ algorithms for Mixed Integer and Linear Programming. By expressing a constrained optimisation as one of simulation from a Boltzmann distribution, we reformulate integer and linear programming as Monte Carlo…
In this study, we introduce an innovative deep learning framework that employs a transformer model to address the challenges of mixed-integer programs, specifically focusing on the Capacitated Lot Sizing Problem (CLSP). Our approach, to our…
The analysis of infeasible subproblems plays an import role in solving mixed integer programs (MIPs) and is implemented in most major MIP solvers. There are two fundamentally different concepts to generate valid global constraints from…
Biclustering techniques have been widely used to identify homogeneous subgroups within large data matrices, such as subsets of genes similarly expressed across subsets of patients. Mining a max-sum sub-matrix is a related but distinct…
Linear programming (LP) relaxations are widely employed in exact solution methods for multilinear programs (MLP). One example is the family of Recursive McCormick Linearization (RML) strategies, where bilinear products are substituted for…
Mixed-integer linear programming (MILP) plays a crucial role in artificial intelligence, biochemistry, finance, cryptography, etc. Notwithstanding popular for decades, the researches of MILP solvers are still limited by the resource…
We raise the question of approximating the compressibility of a string with respect to a fixed compression scheme, in sublinear time. We study this question in detail for two popular lossless compression schemes: run-length encoding (RLE)…
One of the most fundamental method for comparing two given strings $A$ and $B$ is the longest common subsequence (LCS), where the task is to find (the length) of an LCS of $A$ and $B$. In this paper, we deal with the STR-IC-LCS problem…
Internal Pattern Matching (IPM) queries on a text $T$, given two fragments $X$ and $Y$ of $T$ such that $|Y|<2|X|$, ask to compute all exact occurrences of $X$ within $Y$. IPM queries have been introduced by Kociumaka, Radoszewski, Rytter,…
Suffix trees are an important data structure at the core of optimal solutions to many fundamental string problems, such as exact pattern matching, longest common substring, matching statistics, and longest repeated substring. Recent lines…
A classical measure of string comparison is given by the longest common subsequence (LCS) problem on a pair of strings. We consider its generalisation, called the semi-local LCS problem, which arises naturally in many string-related…
We study the {\em maximum duo-preservation string mapping} ({\sc Max-Duo}) problem, which is the complement of the well studied {\em minimum common string partition} ({\sc MCSP}) problem. Both problems have applications in many fields…
In this paper, we present FPT-algorithms for special cases of the shortest vector problem (SVP) and the integer linear programming problem (ILP), when matrices included to the problems' formulations are near square. The main parameter is…
The problem of finding network codes for general connections is inherently difficult in capacity constrained networks. Resource minimization for general connections with network coding is further complicated. Existing methods for…