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Large Language Models (LLMs) are central to the one-for-all intelligent paradigm, but they face a fundamental challenge when dealing with heterogeneous scientific data such as molecules: the inherent gap between discrete linguistic symbols…

Artificial Intelligence · Computer Science 2026-05-22 Yuxuan Chen , Changwei Lv , Yunduo Xiao , Zhongjing Du , Daquan Zhou , Yukun Yan , Zheni Zeng , Zhiyuan Liu

Reaction automata are a formal model that has been introduced to investigate the computing powers of interactive behaviors of biochemical reactions([14]). Reaction automata are language acceptors with multiset rewriting mechanism whose…

Formal Languages and Automata Theory · Computer Science 2012-01-17 Fumiya Okubo , Satoshi Kobayashi , Takashi Yokomori

The recent development of large language models (LLMs) with multi-billion parameters, coupled with the creation of user-friendly application programming interfaces (APIs), has paved the way for automatically generating and executing code in…

Artificial Intelligence · Computer Science 2023-12-14 Alejandro Duque , Abdullah Syed , Kastan V. Day , Matthew J. Berry , Daniel S. Katz , Volodymyr V. Kindratenko

It is well known that modern functional programming languages are naturally amenable to parallel programming. Achieving efficient parallelism using functional languages, however, remains difficult. Perhaps the most important reason for this…

Programming Languages · Computer Science 2018-02-20 Adrien Guatto , Sam Westrick , Ram Raghunathan , Umut Acar , Matthew Fluet

Autoregressive vision-language models (VLMs) can handle many tasks within a single model, yet the representations that enable this capability remain opaque. We find that VLMs align conceptually equivalent inputs into a shared task vector,…

Computer Vision and Pattern Recognition · Computer Science 2025-05-08 Grace Luo , Trevor Darrell , Amir Bar

Modern information systems require autonomous agents capable of navigating complex workflows, yet current methodologies often struggle with the transition from structured metadata parsing to general environmental perception. While the…

Artificial Intelligence · Computer Science 2026-05-28 Susanna Cifani , Mario Luca Bernardi , Marta Cimitile

Large language model (LLM) agents have shown increasing promise for collaborative task completion. However, existing multi-agent frameworks often rely on static workflows, fixed roles, and limited inter-agent communication, reducing their…

Multiagent Systems · Computer Science 2026-02-13 Chengxuan Xia , Qianye Wu , Sixuan Tian , Yilun Hao

Reservoir computing (RC) is a state-of-the-art machine learning method that makes use of the power of dynamical systems (the reservoir) for real-time inference. When using biological complex systems as reservoir substrates, it serves as a…

Adaptation and Self-Organizing Systems · Physics 2026-03-03 Mario U. Gaimann , Miriam Klopotek

Context: Many systems require receiving data from multiple information sources, which act as distributed network devices that asynchronously send the latest data at their own pace to generalize various kinds of devices and connections,…

Programming Languages · Computer Science 2025-03-03 Tetsuo Kamina , Tomoyuki Aotani , Hidehiko Masuhara

We present ReAct!, an interactive tool for high-level reasoning for cognitive robotic applications. ReAct! enables robotic researchers to describe robots' actions and change in dynamic domains, without having to know about the syntactic and…

Artificial Intelligence · Computer Science 2026-05-14 Zeynep Dogmus , Esra Erdem , Volkan Patoglu

This paper presents a method for synthesizing a reactive program which coordinates the actions of a group of other reactive programs, so that the combined system satisfies a temporal specification of its desired long-term behavior.…

Programming Languages · Computer Science 2019-11-12 Suguman Bansal , Kedar S. Namjoshi , Yaniv Sa'ar

Chemical reaction network is an important method for modeling and exploring complex biological processes, bio-chemical interactions and the behavior of different dynamics in system biology. But, formulating such reaction kinetics takes…

Artificial Intelligence · Computer Science 2025-03-28 Sadikshya Gyawali , Ashwini Mandal , Manish Dahal , Manish Awale , Sanjay Rijal , Shital Adhikari , Vaghawan Ojha

LLMs are increasingly used as general-purpose reasoners, but long inputs remain bottlenecked by a fixed context window. Recursive Language Models (RLMs) address this by externalising the prompt and recursively solving subproblems. Yet…

Machine Learning · Computer Science 2026-03-23 Amartya Roy , Rasul Tutunov , Xiaotong Ji , Matthieu Zimmer , Haitham Bou-Ammar

Regulation of multiple reaction modules is quite common in molecular computation and deep learning networks construction through chemical reactions, as is always a headache for that sequential execution of modules goes against the…

Dynamical Systems · Mathematics 2022-11-08 Xiaopeng Shi , Chuanhou Gao , Denis Dochain

Machine learning approaches have recently been leveraged as a substitute or an aid for physical/mathematical modeling approaches to dynamical systems. To develop an efficient machine learning method dedicated to modeling and prediction of…

Machine Learning · Computer Science 2022-08-01 Gouhei Tanaka , Tadayoshi Matsumori , Hiroaki Yoshida , Kazuyuki Aihara

In the past few years, Large Language Models (LLMs) have exploded in usefulness and popularity for code generation tasks. However, LLMs still struggle with accuracy and are unsuitable for high-risk applications without additional oversight…

Software Engineering · Computer Science 2024-10-29 William Murphy , Nikolaus Holzer , Feitong Qiao , Leyi Cui , Raven Rothkopf , Nathan Koenig , Mark Santolucito

The use of adaptive workflow management for in situ visualization and analysis has been a growing trend in large-scale scientific simulations. However, coordinating adaptive workflows with traditional procedural programming languages can be…

Programming Languages · Computer Science 2023-03-30 Qi Wu , Tyson Neuroth , Oleg Igouchkine , Konduri Aditya , Jacqueline H. Chen , Kwan-Liu Ma

Recently, there has been much progress in the formulation and implementation of methods for generic many-particle simulations. These models, however, typically either do not utilize shared memory hardware or do not guarantee data-race…

Computational Physics · Physics 2023-03-01 Julian Jeggle , Raphael Wittkowski

Agents capable of carrying out general tasks on a computer can improve efficiency and productivity by automating repetitive tasks and assisting in complex problem-solving. Ideally, such agents should be able to solve new computer tasks…

Computation and Language · Computer Science 2023-11-20 Geunwoo Kim , Pierre Baldi , Stephen McAleer

We propose active object languages as a development tool for formal system models of distributed systems. Additionally to a formalization based on a term rewriting system, we use established Software Engineering concepts, including software…

Distributed, Parallel, and Cluster Computing · Computer Science 2018-10-08 Eduard Kamburjan , Reiner Hähnle
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