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Multiple sequence alignment is a basic procedure in molecular biology, and it is often treated as being essentially a solved computational problem. However, this is not so, and here I review the evidence for this claim, and outline the…

Populations and Evolution · Quantitative Biology 2018-08-24 David A. Morrison

In this note, we provide proven estimates for the complexity of the SupportMinors Modeling, mostly confirming the heuristic complexity estimates contained in the original article.

Cryptography and Security · Computer Science 2025-06-10 Daniel Cabarcas , Giulia Gaggero , Elisa Gorla

We propose a convex-concave programming approach for the labeled weighted graph matching problem. The convex-concave programming formulation is obtained by rewriting the weighted graph matching problem as a least-square problem on the set…

Computer Vision and Pattern Recognition · Computer Science 2008-10-27 Mikhail Zaslavskiy , Francis Bach , Jean-Philippe Vert

Subgraph Isomorphism is a very basic graph problem, where given two graphs $G$ and $H$ one is to check whether $G$ is a subgraph of $H$. Despite its simple definition, the Subgraph Isomorphism problem turns out to be very broad, as it…

Data Structures and Algorithms · Computer Science 2015-04-14 Marek Cygan , Jakub Pachocki , Arkadiusz Socała

We study the problem of multiple kernel learning from noisy labels. This is in contrast to most of the previous studies on multiple kernel learning that mainly focus on developing efficient algorithms and assume perfectly labeled training…

Machine Learning · Computer Science 2012-06-22 Tianbao Yang , Mehrdad Mahdavi , Rong Jin , Lijun Zhang , Yang Zhou

Detectability of failures of linear programming (LP) decoding and the potential for improvement by adding new constraints motivate the use of an adaptive approach in selecting the constraints for the underlying LP problem. In this paper, we…

Information Theory · Computer Science 2007-07-13 Mohammad H. Taghavi , Paul H. Siegel

In this note, we leverage some of our results from arXiv:1706.06319 to produce a concise and rigorous proof for the complexity of the generalized MinRank Problem in the under-defined and well-defined case. Our main theorem recovers and…

Symbolic Computation · Computer Science 2022-03-11 Alessio Caminata , Elisa Gorla

Diagram-chasing arguments frequently lead to "magical" relations between distant points of diagrams: exactness implications, connecting morphisms, etc.. These long connections are usually composites of short "unmagical" connections, but the…

Category Theory · Mathematics 2013-05-10 George M. Bergman

We consider the Stackelberg shortest-path pricing problem, which is defined as follows. Given a graph G with fixed-cost and pricable edges and two distinct vertices s and t, we may assign prices to the pricable edges. Based on the…

Data Structures and Algorithms · Computer Science 2009-10-02 Patrick Briest , Sanjeev Khanna

We study a combinatorial problem called Minimum Maximal Matching, where we are asked to find in a general graph the smallest that can not be extended. We show that this problem is hard to approximate with a constant smaller than 2, assuming…

Computational Complexity · Computer Science 2018-11-22 Szymon Dudycz , Mateusz Lewandowski , Jan Marcinkowski

Segmenting an image into multiple components is a central task in computer vision. In many practical scenarios, prior knowledge about plausible components is available. Incorporating such prior knowledge into models and algorithms for image…

Computer Vision and Pattern Recognition · Computer Science 2015-09-08 Loic A. Royer , David L. Richmond , Carsten Rother , Bjoern Andres , Dagmar Kainmueller

Semi-labeled trees are phylogenies whose internal nodes may be labeled by higher-order taxa. Thus, a leaf labeled Mus musculus could nest within a subtree whose root node is labeled Rodentia, which itself could nest within a subtree whose…

Data Structures and Algorithms · Computer Science 2016-05-09 Yun Deng , David Fernández-Baca

Recent quasi-optimal error estimates for the finite element approximation of total-variation regularized minimization problems require the existence of a Lipschitz continuous dual solution. We discuss the validity of this condition and…

Numerical Analysis · Mathematics 2021-06-28 Sören Bartels , Robert Tovey , Friedrich Wassmer

In this paper, we introduce the Maximum Matrix Contraction problem, where we aim to contract as much as possible a binary matrix in order to maximize its density. We study the complexity and the polynomial approximability of the problem.…

Computational Complexity · Computer Science 2023-06-05 Dimitri Watel , Pierre-Louis Poirion

In this work, we study the computational complexity of the Minimum Distance Code Detection problem. In this problem, we are given a set of noisy codeword observations and we wish to find a code in a set of linear codes $\mathcal{C}$ of a…

Information Theory · Computer Science 2019-04-09 Alexios Balatsoukas-Stimming , Aris Filos-Ratsikas

We consider the problem of evaluating certain types of functional aggregation queries on relational data subject to additive inequalities. Such aggregation queries, with a smallish number of additive inequalities, arise naturally/commonly…

Data Structures and Algorithms · Computer Science 2020-05-04 Mahmoud Abo-Khamis , Sungjin Im , Benjamin Moseley , Kirk Pruhs , Alireza Samadian

We study the complexity of approximating solution structure of the bijective weighted sentence alignment problem of DeNero and Klein (2008). In particular, we consider the complexity of finding an alignment that has a significant overlap…

Computation and Language · Computer Science 2014-09-09 Antonina Kolokolova , Renesa Nizamee

We identify the complexity of the classification problem for automorphisms of a given countable regularly branching tree up to conjugacy. We consider both the rooted and unrooted cases. Additionally, we calculate the complexity of the…

Logic · Mathematics 2020-01-09 Kyle Beserra , Samuel Coskey

We present and study approximate notions of dimensional and margin complexity, which correspond to the minimal dimension or norm of an embedding required to approximate, rather then exactly represent, a given hypothesis class. We show that…

Machine Learning · Computer Science 2020-03-10 Pritish Kamath , Omar Montasser , Nathan Srebro

Many datasets and approaches in ambient sound analysis use weakly labeled data.Weak labels are employed because annotating every data sample with a strong label is too expensive.Yet, their impact on the performance in comparison to strong…

Sound · Computer Science 2020-12-08 Nicolas Turpault , Romain Serizel , Emmanuel Vincent
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