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In recent years, free energy perturbation (FEP) calculations have garnered increasing attention as tools to support drug discovery. The lead optimization mapper (Lomap) was proposed as an algorithm to calculate the relative free energy…

Biomolecules · Quantitative Biology 2023-04-11 Kairi Furui , Masahito Ohue

Temporal planning offers numerous advantages when based on an expressive representation. Timelines have been known to provide the required expressiveness but at the cost of search efficiency. We propose here a temporal planner, called FAPE,…

Artificial Intelligence · Computer Science 2020-10-27 Arthur Bit-Monnot , Malik Ghallab , Félix Ingrand , David E. Smith

The Suffix Array is a classic text index enabling on-line pattern matching queries via simple binary search. The main drawback of the Suffix Array is that it takes linear space in the text's length, even if the text itself is extremely…

Data Structures and Algorithms · Computer Science 2025-03-19 Davide Cenzato , Lore Depuydt , Travis Gagie , Sung-Hwan Kim , Giovanni Manzini , Francisco Olivares , Nicola Prezza

We prove a separation between offline and online algorithms for finger-based tournament heaps undergoing key modifications. These heaps are implemented by binary trees with keys stored on leaves, and intermediate nodes tracking the min of…

Data Structures and Algorithms · Computer Science 2019-08-05 J. Ian Munro , Richard Peng , Sebastian Wild , Lingyi Zhang

We propose HAMSI (Hessian Approximated Multiple Subsets Iteration), which is a provably convergent, second order incremental algorithm for solving large-scale partially separable optimization problems. The algorithm is based on a local…

Homomorphic Encryption (HE), allowing computations on encrypted data (ciphertext) without decrypting it first, enables secure but prohibitively slow Convolutional Neural Network (CNN) inference for privacy-preserving applications in clouds.…

Cryptography and Security · Computer Science 2022-06-23 Yuxiao Lu , Jie Lin , Chao Jin , Zhe Wang , Min Wu , Khin Mi Mi Aung , Xiaoli Li

Modern deep learning models capture the semantics of complex data by transforming them into high-dimensional embedding vectors. Emerging applications, such as retrieval-augmented generation, use approximate nearest neighbor (ANN) search in…

Databases · Computer Science 2025-10-01 Guoyu Hu , Shaofeng Cai , Tien Tuan Anh Dinh , Zhongle Xie , Cong Yue , Gang Chen , Beng Chin Ooi

We consider the MAP-inference problem for graphical models, which is a valued constraint satisfaction problem defined on real numbers with a natural summation operation. We propose a family of relaxations (different from the famous…

Computer Vision and Pattern Recognition · Computer Science 2020-04-15 Stefan Haller , Paul Swoboda , Bogdan Savchynskyy

We present a new connection between self-adjusting binary search trees (BSTs) and heaps, two fundamental, extensively studied, and practically relevant families of data structures. Roughly speaking, we map an arbitrary heap algorithm within…

Data Structures and Algorithms · Computer Science 2019-01-01 László Kozma , Thatchaphol Saranurak

The single-source shortest path problem is a classical problem in the research field of graph algorithm. In this paper, a new single-source shortest path algorithm for nonnegative weight graph is proposed. The algorithm can compress…

Data Structures and Algorithms · Computer Science 2015-10-16 Yunpeng Li

Automated algorithm selection and hyperparameter tuning facilitates the application of machine learning. Traditional multi-armed bandit strategies look to the history of observed rewards to identify the most promising arms for optimizing…

Machine Learning · Computer Science 2020-05-29 Mischa Schmidt , Julia Gastinger , Sébastien Nicolas , Anett Schülke

For time-critical IoT applications using deep learning, inference acceleration through distributed computing is a promising approach to meet a stringent deadline. In this paper, we implement a working prototype of a new distributed…

Computer Vision and Pattern Recognition · Computer Science 2022-11-29 Zhongtian Dong , Nan Li , Alexandros Iosifidis , Qi Zhang

We propose a new methodology to design first-order methods for unconstrained strongly convex problems. Specifically, instead of tackling the original objective directly, we construct a shifted objective function that has the same minimizer…

Machine Learning · Computer Science 2020-10-22 Kaiwen Zhou , Anthony Man-Cho So , James Cheng

We show that the algorithm to extract diverse M -solutions from a Conditional Random Field (called divMbest [1]) takes exactly the form of a Herding procedure [2], i.e. a deterministic dynamical system that produces a sequence of hypotheses…

Computer Vision and Pattern Recognition · Computer Science 2017-01-31 Ece Ozkan , Gemma Roig , Orcun Goksel , Xavier Boix

Recent matrix completion based methods have not been able to properly model the Haplotype Assembly Problem (HAP) for noisy observations. To cope with such a case, in this letter we propose a new Minimum Error Correction (MEC) based matrix…

Optimization and Control · Mathematics 2019-04-16 Mohamad Mahdi Mohades , Sina Majidian , Mohammad Hossein Kahaei

Enumeration algorithms have been one of recent hot topics in theoretical computer science. Different from other problems, enumeration has many interesting aspects, such as the computation time can be shorter than the total output size, by…

Data Structures and Algorithms · Computer Science 2014-07-16 Takeaki Uno

In this paper, we formulate newly a hierarchical convex optimization for multiclass SVM achieving maximum pairwise margins with least empirical hinge-loss. This optimization problem is a most faithful as well as robust multiclass extension…

Optimization and Control · Mathematics 2020-04-20 Yunosuke Nakayama , Masao Yamagishi , Isao Yamada

This paper investigates algorithms for solving distributed consensus optimization problems that are non-convex. Since Typical ALADIN (Typical Augmented Lagrangian based Alternating Direction Inexact Newton Method, T-ALADIN for short) [1] is…

Optimization and Control · Mathematics 2023-06-12 Xu Du , Jingzhe Wang

Sequential recommendation models, particularly those based on attention, achieve strong accuracy but incur quadratic complexity, making long user histories prohibitively expensive. Sub-quadratic operators such as Hyena provide efficient…

Information Retrieval · Computer Science 2026-03-27 Jiahao Liu , Lin Li , Zhiyuan Li , Kaixi Hu , Kaize Shi , Jingling Yuan

In this paper, we consider the nonsmooth convex optimization problems over the fixed point constraint sets of firmly nonexpansive operators. To find an optimal solution of the problem, we present an iterative method based on the hybrid…

Optimization and Control · Mathematics 2026-03-23 Ontima Pankoon , Nimit Nimana , Yeol Je Cho