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Recent advances in large language models (LLMs) have shown the promise to significantly accelerate the workflow by automating structural modeling and analysis. However, existing studies primarily focus on enabling LLMs to operate a single…

Software Engineering · Computer Science 2026-04-14 Ziheng Geng , Jiachen Liu , Ian Franklin , Ran Cao , Dan M. Frangopol , Minghui Cheng

Text-guided 3D editing aims to modify existing 3D assets using natural-language instructions. Current methods struggle to jointly understand complex prompts, automatically localize edits in 3D, and preserve unedited content. We introduce…

Computer Vision and Pattern Recognition · Computer Science 2026-02-24 Yankuan Chi , Xiang Li , Zixuan Huang , James M. Rehg

A major challenge in nonadiabatic molecular dynamics is to automatically and objectively identify the key reaction coordinates that drive molecules toward distinct excited-state decay channels. Traditional manual analyses are inefficient…

Chemical Physics · Physics 2025-11-18 Hangxu Liu , Yifei Zhu , Zhenggang Lan

Epithelial-Mesenchymal Transition (EMT), and the corresponding reverse process, Mesenchymal-Epithelial Transition (MET), are dynamic and reversible cellular programs orchestrated by many changes at biochemical and morphological levels. A…

Molecular Networks · Quantitative Biology 2019-07-26 Shubham Tripathi , Jianhua Xing , Herbert Levine , Mohit Kumar Jolly

Atomistic simulations are essential tools in chemistry and materials science, accelerating the discovery of novel catalysts, energy storage materials, and pharmaceuticals. However, running these simulations remains challenging due to the…

Chemical Physics · Physics 2025-06-11 Thang D. Pham , Aditya Tanikanti , Murat Keçeli

Although LLMs demonstrate proficiency in several text-based reasoning and planning tasks, their implementation in robotics control is constrained by significant deficiencies: (1) LLM agents are designed to work mainly with textual inputs…

Artificial Intelligence · Computer Science 2025-10-17 Shuang Ao , Flora D. Salim , Simon Khan

Current AI agent frameworks commit early to a single interaction protocol, a fixed tool integration strategy, and static user models, limiting their deployment across diverse interaction paradigms. To address these constraints, we introduce…

Artificial Intelligence · Computer Science 2026-03-25 Alfred Shen , Aaron Shen

Large Language Model (LLM)-based agents have demonstrated strong capabilities across a wide range of tasks, and their application in the medical domain holds particular promise due to the demand for high generalizability and reliance on…

Artificial Intelligence · Computer Science 2025-08-18 Yangyang Zhuang , Wenjia Jiang , Jiayu Zhang , Ze Yang , Joey Tianyi Zhou , Chi Zhang

This study proposes MCEMOL (Multi-Constrained Evolutionary Molecular Design Framework), a molecular optimization approach integrating rule-based evolution with molecular crossover. MCEMOL employs dual-layer evolution: optimizing…

Neural and Evolutionary Computing · Computer Science 2026-01-16 Shanxian Lin , Wei Xia , Yuichi Nagata , Haichuan Yang

We introduce an autonomous multiagent framework for mechanistic interpretability that automates both explaining and finding internal features in large language models. The system runs two coupled loops: (1) explanation refinement, where an…

Computation and Language · Computer Science 2026-05-05 Arnau Marin-Llobet , Javier Ferrando

Can a multimodal language model learn to manipulate physical objects by reasoning about its own failures-without gradient updates, demonstrations, or reward engineering? We argue the answer is yes, under conditions we characterise…

Robotics · Computer Science 2026-03-06 Vaishak Kumar

Dermatological diagnosis requires integrating fine-grained visual perception with expert clinical knowledge. Although Multimodal Large Language Models (MLLMs) facilitate interactive medical image analysis, their application in dermatology…

Computer Vision and Pattern Recognition · Computer Science 2026-05-15 Yize Liu , Siyuan Yan , Ming Hu , Lie Ju , Xieji Li , Feilong Tang , Wei Feng , Zongyuan Ge

Transformative innovations in model architectures have introduced hierarchical embedding augmentation as a means to redefine the representation of tokens through multi-level semantic structures, offering enhanced adaptability to complex…

Computation and Language · Computer Science 2025-08-11 Derek Yotheringhay , Alistair Kirkland , Humphrey Kirkbride , Josiah Whitesteeple

The evolution of Large Language Model (LLM) agents towards System~2 reasoning, characterized by deliberative, high-precision problem-solving, requires maintaining rigorous logical integrity over extended horizons. However, prevalent memory…

Artificial Intelligence · Computer Science 2026-05-15 Kaixiang Wang , Yidan Lin , Jiong Lou , Zhaojiacheng Zhou , Bunyod Suvonov , Jie Li

Visual Language Models (VLMs) have increasingly become the main paradigm for understanding indoor scenes, but they still struggle with metric and spatial reasoning. Current approaches rely on end-to-end video understanding or large-scale…

Computer Vision and Pattern Recognition · Computer Science 2026-03-17 Fernando Ropero , Erkin Turkoz , Daniel Matos , Junqing Du , Antonio Ruiz , Yanfeng Zhang , Lu Liu , Mingwei Sun , Yongliang Wang

This paper proposes EvoAgent - an evolvable large language model (LLM) agent framework that integrates structured skill learning with a hierarchical sub-agent delegation mechanism. EvoAgent models skills as multi-file structured capability…

Artificial Intelligence · Computer Science 2026-04-27 Aimin Zhang , Jiajing Guo , Fuwei Jia , Chen Lv , Boyu Wang , Fangzheng Li

Amodal completion, the task of inferring invisible object parts, faces significant challenges in maintaining semantic consistency and structural integrity. Prior progressive approaches are inherently limited by inference instability and…

Computer Vision and Pattern Recognition · Computer Science 2025-12-25 Hongxing Fan , Shuyu Zhao , Jiayang Ao , Lu Sheng

Large language models (LLMs) such as GPT and Gemini have demonstrated remarkable capabilities in contextual understanding and reasoning. The strong performance of LLMs has sparked growing interest in leveraging them to automate tasks…

Artificial Intelligence · Computer Science 2026-03-10 Ziheng Geng , Jiachen Liu , Ran Cao , Lu Cheng , Dan M. Frangopol , Minghui Cheng

Motile microorganisms, like bacteria and algae, unify abilities like self-propulsion, autonomous navigation, and decision-making on the micron scale. While recent breakthroughs have led to the creation of synthetic microswimmers and…

Soft Condensed Matter · Physics 2026-02-06 Aritra K. Mukhopadhyay , Ran Niu , Linhui Fu , Kai Feng , Christopher Fujta , Qiang Zhao , Jinping Qu , Benno Liebchen

Recent significant advances in integrating multiple Large Language Model (LLM) systems have enabled Agentic Frameworks capable of performing complex tasks autonomously, including novel scientific research. We develop and demonstrate such a…

Artificial Intelligence · Computer Science 2025-07-16 Darui Lu , Jordan M. Malof , Willie J. Padilla
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