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Biclustering, also known as co-clustering or two-way clustering, simultaneously partitions the rows and columns of a data matrix to reveal submatrices with coherent patterns. Incorporating background knowledge into clustering to enhance…
We systematically study the computational complexity of a broad class of computational problems in phylogenetic reconstruction. The class contains for example the rooted triple consistency problem, forbidden subtree problems, the quartet…
Finding a maximum independent set is a fundamental NP-hard problem that is used in many real-world applications. Given an unweighted graph, this problem asks for a maximum cardinality set of pairwise non-adjacent vertices. Some of the most…
Phylogenetic networks are a flexible model of evolution that can represent reticulate evolution and handle complex data. Tree-based networks, which are phylogenetic networks that have a spanning tree with the same root and leaf-set as the…
We identify a sufficient condition, treewidth-pliability, that gives a polynomial-time algorithm for an arbitrarily good approximation of the optimal value in a large class of Max-2-CSPs parameterised by the class of allowed constraint…
This work studies the combinatorial optimization problem of finding an optimal core tensor shape, also called multilinear rank, for a size-constrained Tucker decomposition. We give an algorithm with provable approximation guarantees for its…
Discrete energy minimization is widely-used in computer vision and machine learning for problems such as MAP inference in graphical models. The problem, in general, is notoriously intractable, and finding the global optimal solution is…
Many combinatorial optimization problems can be formulated as the search for a subgraph that satisfies certain properties and minimizes the total weight. We assume here that the vertices correspond to points in a metric space and can take…
We significantly improve known time bounds for solving the minimum cut problem on undirected graphs. We use a ``semi-duality'' between minimum cuts and maximum spanning tree packings combined with our previously developed random sampling…
The $k$-defective clique model relaxes the strict completeness constraint of the traditional clique by allowing up to $k$ missing edges, providing a robust formulation for detecting cohesive structures in noisy graphs. Consequently, the…
Given a collection of $m$ sets from a universe $\mathcal{U}$, the Maximum Set Coverage problem consists of finding $k$ sets whose union has largest cardinality. This problem is NP-Hard, but the solution can be approximated by a polynomial…
A $k$-defective clique of an undirected graph $G$ is a subset of its vertices that induces a nearly complete graph with a maximum of $k$ missing edges. The maximum $k$-defective clique problem, which asks for the largest $k$-defective…
Many discrete optimization problems amount to selecting a feasible set of edges of least weight. We consider in this paper the context of spatial graphs where the positions of the vertices are uncertain and belong to known uncertainty sets.…
The maximum common subtree isomorphism problem asks for the largest possible isomorphism between subtrees of two given input trees. This problem is a natural restriction of the maximum common subgraph problem, which is ${\sf NP}$-hard in…
We study the problem of minimizing a multivariate polynomial function over the unit hypercube. By representing the polynomial through a hypergraph and exploiting its sparsity structure, we establish a new sufficient condition under which…
In this paper, we study a number of well-known combinatorial optimization problems that fit in the following paradigm: the input is a collection of (potentially inconsistent) local relationships between the elements of a ground set (e.g.,…
In 2016, Chandrasekaran, V\'egh, and Vempala published a method to solve the minimum-cost perfect matching problem on an arbitrary graph by solving a strictly polynomial number of linear programs. However, their method requires a strong…
We study the {\em min-cost chain-constrained spanning-tree} (abbreviated \mcst) problem: find a min-cost spanning tree in a graph subject to degree constraints on a nested family of node sets. We devise the {\em first} polytime algorithm…
We consider the problem of approximating the reachable set of a discrete-time polynomial system from a semialgebraic set of initial conditions under general semialgebraic set constraints. Assuming inclusion in a given simple set like a box…
Given a k-uniform hypergraph on n vertices, partitioned in k equal parts such that every hyperedge includes one vertex from each part, the k-dimensional matching problem asks whether there is a disjoint collection of the hyperedges which…