arXiv subjects

Yinan Xu

Publications and source records attributed to Yinan Xu.

9 recordsLinked to original sources

arXiv2026

The SAGES Critical View of Safety Challenge: A Global Benchmark for AI-Assisted Surgical Quality Assessment

Advances in artificial intelligence (AI) for surgical quality assessment promise to democratize access to expertise, with applications in training, guidance, and accreditation. This study presents the SAGES Critical View of Safety (CVS) Challenge, the first AI competition organized by a surgical society, using the CVS in laparoscopic cholecystectomy, a universally recommended yet inconsistently performed safety step, as an exemplar of surgical quality assessment. A global collaboration across 54 institutions in 24 countries engaged hundreds of clinicians and engineers to curate 1,000 videos annotated by 20 surgical experts according to a consensus-validated protocol. The challenge addressed key barriers to real-world deployment in surgery, including achieving high performance, capturing uncertainty in subjective assessment, and ensuring robustness to clinical variability. To enable this scale of effort, we developed EndoGlacier, a framework for managing large, heterogeneous surgical video and multi-annotator workflows. Thirteen international teams participated, achieving up to a 17% relative gain in assessment performance, over 80% reduction in calibration error, and a 17% relative improvement in robustness over the state-of-the-art. Analysis of results highlighted methodological trends linked to model performance, providing guidance for future research toward robust, clinically deployable AI for surgical quality assessment.

cs.CV↗

arXiv2025

CodeV: Empowering LLMs with HDL Generation through Multi-Level Summarization

The design flow of processors, particularly in hardware description languages (HDL) like Verilog and Chisel, is complex and costly. While recent advances in large language models (LLMs) have significantly improved coding tasks in software languages such as Python, their application in HDL generation remains limited due to the scarcity of high-quality HDL data. Traditional methods of adapting LLMs for hardware design rely on synthetic HDL datasets, which often suffer from low quality because even advanced LLMs like GPT perform poorly in the HDL domain. Moreover, these methods focus solely on chat tasks and the Verilog language, limiting their application scenarios. In this paper, we observe that: (1) HDL code collected from the real world is of higher quality than code generated by LLMs. (2) LLMs like GPT-3.5 excel in summarizing HDL code rather than generating it. (3) An explicit language tag can help LLMs better adapt to the target language when there is insufficient data. Based on these observations, we propose an efficient LLM fine-tuning pipeline for HDL generation that integrates a multi-level summarization data synthesis process with a novel Chat-FIM-Tag supervised fine-tuning method. The pipeline enhances the generation of HDL code from natural language descriptions and enables the handling of various tasks such as chat and infilling incomplete code. Utilizing this pipeline, we introduce CodeV, a series of HDL generation LLMs. Among them, CodeV-All not only possesses a more diverse range of language abilities, i.e. Verilog and Chisel, and a broader scope of tasks, i.e. Chat and fill-in-middle (FIM), but it also achieves performance on VerilogEval that is comparable to or even surpasses that of CodeV-Verilog fine-tuned on Verilog only, making them the first series of open-source LLMs designed for multi-scenario HDL generation.

cs.PL↗

arXiv2025

Autodifferentiable Geometric Restraints for Enhanced Sampling Simulations with Classical and Machine Learned Force Fields

The use of external restraints is ubiquitous in advanced molecular simulation techniques. In general, restraints serve to reduce the configurational space that is available for sampling, thereby reducing the computational demands associated with a given simulations. Examples include the use of positional restraints in docking simulations or positional restraints in studies of catalysis. Past work has sought to couple complex restraining potentials with enhanced sampling methods, including Metadynamics or Extended Adaptive Biasing Force approaches. Here, we introduce the use of more general geometric potentials coupled with enhanced sampling methods that incorporate neural networks or spectral decomposition to achieve more efficient sampling in the context of advanced materials design.

physics.comp-ph↗

arXiv2024

The Importance of Learning without Constraints: Reevaluating Benchmarks for Invariant and Equivariant Features of Machine Learning Potentials in Generating Free Energy Landscapes

Machine-learned interatomic potentials (MILPs) are rapidly gaining interest for molecular modeling, as they provide a balance between quantum-mechanical level descriptions of atomic interactions and reasonable computational efficiency. However, questions remain regarding the stability of simulations using these potentials, as well as the extent to which the learned potential energy function can be extrapolated safely. Past studies have reported challenges encountered when MILPs are applied to classical benchmark systems. In this work, we show that some of these challenges are related to the characteristics of the training datasets, particularly the inclusion of rigid constraints. We demonstrate that long stability in simulations with MILPs can be achieved by generating unconstrained datasets using unbiased classical simulations if the fast modes are correctly sampled. Additionally, we emphasize that in order to achieve precise energy predictions, it is important to resort to enhanced sampling techniques for dataset generation, and we demonstrate that safe extrapolation of MILPs depends on judicious choices related to the system's underlying free energy landscape and the symmetry features embedded within the machine learning models.

physics.comp-ph↗

arXiv2023

CoverHunter: Cover Song Identification with Refined Attention and Alignments

Abstract: Cover song identification (CSI) focuses on finding the same music with different versions in reference anchors given a query track. In this paper, we propose a novel system named CoverHunter that overcomes the shortcomings of existing detection schemes by exploring richer features with refined attention and alignments. CoverHunter contains three key modules: 1) A convolution-augmented transformer (i.e., Conformer) structure that captures both local and global feature interactions in contrast to previous methods mainly relying on convolutional neural networks; 2) An attention-based time pooling module that further exploits the attention in the time dimension; 3) A novel coarse-to-fine training scheme that first trains a network to roughly align the song chunks and then refines the network by training on the aligned chunks. At the same time, we also summarize some important training tricks used in our system that help achieve better results. Experiments on several standard CSI datasets show that our method significantly improves over state-of-the-art methods with an embedding size of 128 (2.3% on SHS100K-TEST and 17.7% on DaTacos).

cs.SD↗

arXiv2023

PySAGES: flexible, advanced sampling methods accelerated with GPUs

Molecular simulations are an important tool for research in physics, chemistry, and biology. The capabilities of simulations can be greatly expanded by providing access to advanced sampling methods and techniques that permit calculation of the relevant underlying free energy landscapes. In this sense, software that can be seamlessly adapted to a broad range of complex systems is essential. Building on past efforts to provide open-source community supported software for advanced sampling, we introduce PySAGES, a Python implementation of the Software Suite for Advanced General Ensemble Simulations (SSAGES) that provides full GPU support for massively parallel applications of enhanced sampling methods such as adaptive biasing forces, harmonic bias, or forward flux sampling in the context of molecular dynamics simulations. By providing an intuitive interface that facilitates the management of a system's configuration, the inclusion of new collective variables, and the implementation of sophisticated free energy-based sampling methods, the PySAGES library serves as a general platform for the development and implementation of emerging simulation techniques. The capabilities, core features, and computational performance of this new tool are demonstrated with clear and concise examples pertaining to different classes of molecular systems. We anticipate that PySAGES will provide the scientific community with a robust and easily accessible platform to accelerate simulations, improve sampling, and enable facile estimation of free energies for a wide range of materials and processes.

physics.comp-ph↗

arXiv2020

Co-Evolution of Multi-Robot Controllers and Task Cues for Off-World Open Pit Mining

Robots are ideal for open-pit mining on the Moon as its a dull, dirty, and dangerous task. The challenge is to scale up productivity with an ever-increasing number of robots. This paper presents a novel method for developing scalable controllers for use in multi-robot excavation and site-preparation scenarios. The controller starts with a blank slate and does not require human-authored operations scripts nor detailed modeling of the kinematics and dynamics of the excavator. The 'Artificial Neural Tissue' (ANT) architecture is used as a control system for autonomous robot teams to perform resource gathering. This control architecture combines a variable-topology neural-network structure with a coarse-coding strategy that permits specialized areas to develop in the tissue. Our work in this field shows that fleets of autonomous decentralized robots have an optimal operating density. Too few robots result in insufficient labor, while too many robots cause antagonism, where the robots undo each other's work and are stuck in gridlock. In this paper, we explore the use of templates and task cues to improve group performance further and minimize antagonism. Our results show light beacons and task cues are effective in sparking new and innovative solutions at improving robot performance when placed under stressful situations such as severe time-constraint.

cs.RO↗

arXiv2020

Table Search Using a Deep Contextualized Language Model

Pretrained contextualized language models such as BERT have achieved impressive results on various natural language processing benchmarks. Benefiting from multiple pretraining tasks and large scale training corpora, pretrained models can capture complex syntactic word relations. In this paper, we use the deep contextualized language model BERT for the task of ad hoc table retrieval. We investigate how to encode table content considering the table structure and input length limit of BERT. We also propose an approach that incorporates features from prior literature on table retrieval and jointly trains them with BERT. In experiments on public datasets, we show that our best approach can outperform the previous state-of-the-art method and BERT baselines with a large margin under different evaluation metrics.

cs.IR↗

arXiv2020

The Design of a Space-based Observation and Tracking System for Interstellar Objects

The recent observation of interstellar objects, 1I/Oumuamua and 2I/Borisov cross the solar system opened new opportunities for planetary science and planetary defense. As the first confirmed objects originating outside of the solar system, there are myriads of origin questions to explore and discuss, including where they came from, how did they get here and what are they composed of. Besides, there is a need to be cognizant especially if such interstellar objects pass by the Earth of potential dangers of impact. Specifically, in the case of Oumuamua, which was detected after its perihelion, passed by the Earth at around 0.2 AU, with an estimated excess speed of 60 km/s relative to the Earth. Without enough forewarning time, a collision with such high-speed objects can pose a catastrophic danger to all life Earth. Such challenges underscore the importance of detection and exploration systems to study these interstellar visitors. The detection system can include a spacecraft constellation with zenith-pointing telescope spacecraft. After an event is detected, a spacecraft swarm can be deployed from Earth to flyby past the visitor. The flyby can then be designed to perform a proximity operation of interest. This work aims to develop algorithms to design these swarm missions through the IDEAS (Integrated Design Engineering & Automation of Swarms) architecture. Specifically, we develop automated algorithms to design an Earth-based detection constellation and a spacecraft swarm that generates detailed surface maps of the visitor during the rendezvous, along with their heliocentric cruise trajectories.

astro-ph.IM↗