arXiv subjects

Xuefeng Yan

Publications and source records attributed to Xuefeng Yan.

At least 19 recordsLinked to original sources

arXiv2026

PFArena: Benchmarking Language Models for Protein Modification

Protein modification requires navigating an immense sequence space, yet wet-lab validation remains low-throughput and costly. Although computational paradigms including protein language models (PLMs), large language models (LLMs), and LLM-based agents have shown promise in protein modification, their relative efficacy across realistic experimental decision-making settings remains unclear. To bridge this gap, we introduce PFArena, a benchmark comprising four controlled task interfaces that cover single-mutant generation and multi-mutant ranking. By providing varying levels of mutation fitness data, PFArena reflects four representative research scenarios characterized by differing degrees of prior experimental context. We assess six PLMs, six LLMs, and five LLM-based agents using complementary metrics to measure both peak and overall protein modification performance. Our evaluation reveals that model performance shifts systematically with the availability of target-specific experimental evidence: PLMs demonstrate proficiency in open-ended single-mutant generation by leveraging protein-specific priors, whereas LLMs and agents perform strongly in multi-mutant ranking, particularly when target-specific fitness data are available. Nevertheless, all model families face fundamental challenges with increasing search-space size and mutation depth. We release our code and benchmark suite to facilitate reproducible research in model-assisted protein modification.

cs.AI↗

arXiv2026

RIGEL: Real-time Optical Anomaly Diagnosis with Stateful In-Network Inference based on Distributed On-switch GNNs

The recent booming of data-intensive applications has complicated optical network management, making real-time optical anomaly diagnosis a must-have feature. However, existing approaches are mostly based on centralized data analytics and thus can hardly avoid the latency and overhead due to message exchanges between data and control planes. In this work, we propose and prototype RIGEL, which, to the best of our knowledge, is the first real-time optical anomaly diagnosis system that realizes stateful distributed in-network inference through collaborative graph neural networks (GNNs) on Tofino switches. The system is designed to be fully in-network, and a software-hardware co-design is proposed to preprocess high-dimensional spectral data for being suitable for hardware-based in-network inference. Next, we first develop an effective model to combine an autoencoder with a GraphSAGE-based GNN, and then propose a generalizable method to adapt the model to Tofino switch. The effectiveness of RIGEL is showcased in a realistic packet-over-optical network testbed, verifying that it achieves highly accurate diagnosis to detect and locate optical anomalies timely and highlighting its benefits over the state-of-the-art methods.

cs.NI↗

arXiv2026

Efficient RWKV-based Representation Learning for 3D Point Clouds

The recent receptance weighted key value (RWKV) model combines RNN-style recurrence, offering a linear-complexity alternative to Transformers' quadratic self-attention for modeling global dependencies. However, when directly applied to point clouds, RWKV, originally developed for sequential text, struggles to capture local geometric structures and model spatial dependencies effectively. To address this, we propose the \textbf{P-RWKV} block, which bridges the gap between sequence modeling and irregular 3D geometry while preserving the efficiency advantages of RWKV. It consists of a Local Perception Expansion (LPE) component to expand contextual perception along the spatio-temporal sequence and a Spatial Context Enhancement (SCE) component to strengthen spatial awareness. To validate the effectiveness of P-RWKV for point cloud understanding, we construct PointER, a single-modality self-supervised representation learning framework whose encoder is composed of stacked P-RWKV blocks. Furthermore, we extend P-RWKV to a cross-modality setting and integrate the proposed core sub-modules into multiple architectures, demonstrating strong plug-and-play flexibility and architectural generality. Extensive experiments show that the P-RWKV block and its key sub-modules achieve competitive performance across various tasks with lower computational cost and inference latency. Code will be released upon acceptance.

cs.CV↗

arXiv2026

RegTrack: Simplicity Beneath Complexity in Robust Multi-Modal 3D Multi-Object Tracking

Existing 3D multi-object tracking (MOT) methods often sacrifice efficiency and generalizability for robustness, largely relying on complex association metrics derived from multi-modal architectures and class-specific motion priors. Challenging the rooted belief that greater complexity necessarily yields greater robustness, we propose a robust, efficient, and generalizable method for multi-modal 3D MOT, dubbed RegTrack. Inspired by Yang-Mills gauge theory, RegTrack is built upon a unified tri-cue encoder (UTEnc), comprising three tightly coupled components: a local-global point cloud encoder (LG-PEnc), a mixture-of-experts-based geometry encoder (MoE-GEnc), and an image encoder from a well-pretrained visual-language model. LG-PEnc efficiently encodes the spatial and structural information of point clouds to produce foundational representations for each object, whose pairwise similarities serve as the sole association metric. MoE-GEnc seamlessly interacts with LG-PEnc to model inter-object geometric relationships across frames, adaptively compensating for inter-frame object motion without relying on any class-specific priors. The image encoder is kept frozen and is used exclusively during training to provide a well-pretrained representation space. Point cloud representations are aligned to this space to supervise the motion compensation process, encouraging representation invariance across frames for the same object while enhancing discriminability among different objects. Through this formulation, RegTrack attains robust, efficient, and generalizable inference using only point cloud inputs, requiring just 2.6M parameters. Extensive experiments on KITTI and nuScenes show that RegTrack outperforms its thirty-five competitors.

cs.CV↗

arXiv2026

IPEC: Test-Time Incremental Prototype Enhancement Classifier for Few-Shot Learning

Metric-based few-shot approaches have gained significant popularity due to their relatively straightforward implementation, high interpret ability, and computational efficiency. However, stemming from the batch-independence assumption during testing, which prevents the model from leveraging valuable knowledge accumulated from previous batches. To address these challenges, we propose a novel test-time method called Incremental Prototype Enhancement Classifier (IPEC), a test-time method that optimizes prototype estimation by leveraging information from previous query samples. IPEC maintains a dynamic auxiliary set by selectively incorporating query samples that are classified with high confidence. To ensure sample quality, we design a robust dual-filtering mechanism that assesses each query sample based on both global prediction confidence and local discriminative ability. By aggregating this auxiliary set with the support set in subsequent tasks, IPEC builds progressively more stable and representative prototypes, effectively reducing its reliance on the initial support set. We ground this approach in a Bayesian interpretation, conceptualizing the support set as a prior and the auxiliary set as a data-driven posterior, which in turn motivates the design of a practical "warm-up and test" two-stage inference protocol. Extensive empirical results validate the superior performance of our proposed method across multiple few-shot classification tasks.

cs.LG↗

arXiv2025

An efficient deep reinforcement learning environment for flexible job-shop scheduling

The Flexible Job-shop Scheduling Problem (FJSP) is a classical combinatorial optimization problem that has a wide-range of applications in the real world. In order to generate fast and accurate scheduling solutions for FJSP, various deep reinforcement learning (DRL) scheduling methods have been developed. However, these methods are mainly focused on the design of DRL scheduling Agent, overlooking the modeling of DRL environment. This paper presents a simple chronological DRL environment for FJSP based on discrete event simulation and an end-to-end DRL scheduling model is proposed based on the proximal policy optimization (PPO). Furthermore, a short novel state representation of FJSP is proposed based on two state variables in the scheduling environment and a novel comprehensible reward function is designed based on the scheduling area of machines. Experimental results on public benchmark instances show that the performance of simple priority dispatching rules (PDR) is improved in our scheduling environment and our DRL scheduling model obtains competing performance compared with OR-Tools, meta-heuristic, DRL and PDR scheduling methods.

cs.LG↗

arXiv2025

TimeMKG: Knowledge-Infused Causal Reasoning for Multivariate Time Series Modeling

Multivariate time series data typically comprises two distinct modalities: variable semantics and sampled numerical observations. Traditional time series models treat variables as anonymous statistical signals, overlooking the rich semantic information embedded in variable names and data descriptions. However, these textual descriptors often encode critical domain knowledge that is essential for robust and interpretable modeling. Here we present TimeMKG, a multimodal causal reasoning framework that elevates time series modeling from low-level signal processing to knowledge informed inference. TimeMKG employs large language models to interpret variable semantics and constructs structured Multivariate Knowledge Graphs that capture inter-variable relationships. A dual-modality encoder separately models the semantic prompts, generated from knowledge graph triplets, and the statistical patterns from historical time series. Cross-modality attention aligns and fuses these representations at the variable level, injecting causal priors into downstream tasks such as forecasting and classification, providing explicit and interpretable priors to guide model reasoning. The experiment in diverse datasets demonstrates that incorporating variable-level knowledge significantly improves both predictive performance and generalization.

cs.LG↗

arXiv2025

DA2Diff: Exploring Degradation-aware Adaptive Diffusion Priors for All-in-One Weather Restoration

Image restoration under adverse weather conditions is a critical task for many vision-based applications. Recent all-in-one frameworks that handle multiple weather degradations within a unified model have shown potential. However, the diversity of degradation patterns across different weather conditions, as well as the complex and varied nature of real-world degradations, pose significant challenges for multiple weather removal. To address these challenges, we propose an innovative diffusion paradigm with degradation-aware adaptive priors for all-in-one weather restoration, termed DA2Diff. It is a new exploration that applies CLIP to perceive degradation-aware properties for better multi-weather restoration. Specifically, we deploy a set of learnable prompts to capture degradation-aware representations by the prompt-image similarity constraints in the CLIP space. By aligning the snowy/hazy/rainy images with snow/haze/rain prompts, each prompt contributes to different weather degradation characteristics. The learned prompts are then integrated into the diffusion model via the designed weather specific prompt guidance module, making it possible to restore multiple weather types. To further improve the adaptiveness to complex weather degradations, we propose a dynamic expert selection modulator that employs a dynamic weather-aware router to flexibly dispatch varying numbers of restoration experts for each weather-distorted image, allowing the diffusion model to restore diverse degradations adaptively. Experimental results substantiate the favorable performance of DA2Diff over state-of-the-arts in quantitative and qualitative evaluation. Source code will be available after acceptance.

cs.CV↗

arXiv2024

CrossTracker: Robust Multi-modal 3D Multi-Object Tracking via Cross Correction

The fusion of camera- and LiDAR-based detections offers a promising solution to mitigate tracking failures in 3D multi-object tracking (MOT). However, existing methods predominantly exploit camera detections to correct tracking failures caused by potential LiDAR detection problems, neglecting the reciprocal benefit of refining camera detections using LiDAR data. This limitation is rooted in their single-stage architecture, akin to single-stage object detectors, lacking a dedicated trajectory refinement module to fully exploit the complementary multi-modal information. To this end, we introduce CrossTracker, a novel two-stage paradigm for online multi-modal 3D MOT. CrossTracker operates in a coarse-to-fine manner, initially generating coarse trajectories and subsequently refining them through an independent refinement process. Specifically, CrossTracker incorporates three essential modules: i) a multi-modal modeling (M^3) module that, by fusing multi-modal information (images, point clouds, and even plane geometry extracted from images), provides a robust metric for subsequent trajectory generation. ii) a coarse trajectory generation (C-TG) module that generates initial coarse dual-stream trajectories, and iii) a trajectory refinement (TR) module that refines coarse trajectories through cross correction between camera and LiDAR streams. Comprehensive experiments demonstrate the superior performance of our CrossTracker over its eighteen competitors, underscoring its effectiveness in harnessing the synergistic benefits of camera and LiDAR sensors for robust multi-modal 3D MOT.

cs.CV↗

arXiv2024

RSHazeDiff: A Unified Fourier-aware Diffusion Model for Remote Sensing Image Dehazing

Haze severely degrades the visual quality of remote sensing images and hampers the performance of road extraction, vehicle detection, and traffic flow monitoring. The emerging denoising diffusion probabilistic model (DDPM) exhibits the significant potential for dense haze removal with its strong generation ability. Since remote sensing images contain extensive small-scale texture structures, it is important to effectively restore image details from hazy images. However, current wisdom of DDPM fails to preserve image details and color fidelity well, limiting its dehazing capacity for remote sensing images. In this paper, we propose a novel unified Fourier-aware diffusion model for remote sensing image dehazing, termed RSHazeDiff. From a new perspective, RSHazeDiff explores the conditional DDPM to improve image quality in dense hazy scenarios, and it makes three key contributions. First, RSHazeDiff refines the training phase of diffusion process by performing noise estimation and reconstruction constraints in a coarse-to-fine fashion. Thus, it remedies the unpleasing results caused by the simple noise estimation constraint in DDPM. Second, by taking the frequency information as important prior knowledge during iterative sampling steps, RSHazeDiff can preserve more texture details and color fidelity in dehazed images. Third, we design a global compensated learning module to utilize the Fourier transform to capture the global dependency features of input images, which can effectively mitigate the effects of boundary artifacts when processing fixed-size patches. Experiments on both synthetic and real-world benchmarks validate the favorable performance of RSHazeDiff over state-of-the-art methods. Source code will be released at https://github.com/jm-xiong/RSHazeDiff.

cs.CV↗

arXiv2024

PointCG: Self-supervised Point Cloud Learning via Joint Completion and Generation

The core of self-supervised point cloud learning lies in setting up appropriate pretext tasks, to construct a pre-training framework that enables the encoder to perceive 3D objects effectively. In this paper, we integrate two prevalent methods, masked point modeling (MPM) and 3D-to-2D generation, as pretext tasks within a pre-training framework. We leverage the spatial awareness and precise supervision offered by these two methods to address their respective limitations: ambiguous supervision signals and insensitivity to geometric information. Specifically, the proposed framework, abbreviated as PointCG, consists of a Hidden Point Completion (HPC) module and an Arbitrary-view Image Generation (AIG) module. We first capture visible points from arbitrary views as inputs by removing hidden points. Then, HPC extracts representations of the inputs with an encoder and completes the entire shape with a decoder, while AIG is used to generate rendered images based on the visible points' representations. Extensive experiments demonstrate the superiority of the proposed method over the baselines in various downstream tasks. Our code will be made available upon acceptance.

cs.CV↗

arXiv2023

PointeNet: A Lightweight Framework for Effective and Efficient Point Cloud Analysis

Current methodologies in point cloud analysis predominantly explore 3D geometries, often achieved through the introduction of intricate learnable geometric extractors in the encoder or by deepening networks with repeated blocks. However, these approaches inevitably lead to a significant number of learnable parameters, resulting in substantial computational costs and imposing memory burdens on CPU/GPU. Additionally, the existing strategies are primarily tailored for object-level point cloud classification and segmentation tasks, with limited extensions to crucial scene-level applications, such as autonomous driving. In response to these limitations, we introduce PointeNet, an efficient network designed specifically for point cloud analysis. PointeNet distinguishes itself with its lightweight architecture, low training cost, and plug-and-play capability, effectively capturing representative features. The network consists of a Multivariate Geometric Encoding (MGE) module and an optional Distance-aware Semantic Enhancement (DSE) module. The MGE module employs operations of sampling, grouping, and multivariate geometric aggregation to lightweightly capture and adaptively aggregate multivariate geometric features, providing a comprehensive depiction of 3D geometries. The DSE module, designed for real-world autonomous driving scenarios, enhances the semantic perception of point clouds, particularly for distant points. Our method demonstrates flexibility by seamlessly integrating with a classification/segmentation head or embedding into off-the-shelf 3D object detection networks, achieving notable performance improvements at a minimal cost. Extensive experiments on object-level datasets, including ModelNet40, ScanObjectNN, ShapeNetPart, and the scene-level dataset KITTI, demonstrate the superior performance of PointeNet over state-of-the-art methods in point cloud analysis.

cs.CV↗

arXiv2023

Uncertainty-Driven Multi-Scale Feature Fusion Network for Real-time Image Deraining

Visual-based measurement systems are frequently affected by rainy weather due to the degradation caused by rain streaks in captured images, and existing imaging devices struggle to address this issue in real-time. While most efforts leverage deep networks for image deraining and have made progress, their large parameter sizes hinder deployment on resource-constrained devices. Additionally, these data-driven models often produce deterministic results, without considering their inherent epistemic uncertainty, which can lead to undesired reconstruction errors. Well-calibrated uncertainty can help alleviate prediction errors and assist measurement devices in mitigating risks and improving usability. Therefore, we propose an Uncertainty-Driven Multi-Scale Feature Fusion Network (UMFFNet) that learns the probability mapping distribution between paired images to estimate uncertainty. Specifically, we introduce an uncertainty feature fusion block (UFFB) that utilizes uncertainty information to dynamically enhance acquired features and focus on blurry regions obscured by rain streaks, reducing prediction errors. In addition, to further boost the performance of UMFFNet, we fused feature information from multiple scales to guide the network for efficient collaborative rain removal. Extensive experiments demonstrate that UMFFNet achieves significant performance improvements with few parameters, surpassing state-of-the-art image deraining methods.

cs.CV↗

arXiv2023

Joint Depth Estimation and Mixture of Rain Removal From a Single Image

Rainy weather significantly deteriorates the visibility of scene objects, particularly when images are captured through outdoor camera lenses or windshields. Through careful observation of numerous rainy photos, we have found that the images are generally affected by various rainwater artifacts such as raindrops, rain streaks, and rainy haze, which impact the image quality from both near and far distances, resulting in a complex and intertwined process of image degradation. However, current deraining techniques are limited in their ability to address only one or two types of rainwater, which poses a challenge in removing the mixture of rain (MOR). In this study, we propose an effective image deraining paradigm for Mixture of rain REmoval, called DEMore-Net, which takes full account of the MOR effect. Going beyond the existing deraining wisdom, DEMore-Net is a joint learning paradigm that integrates depth estimation and MOR removal tasks to achieve superior rain removal. The depth information can offer additional meaningful guidance information based on distance, thus better helping DEMore-Net remove different types of rainwater. Moreover, this study explores normalization approaches in image deraining tasks and introduces a new Hybrid Normalization Block (HNB) to enhance the deraining performance of DEMore-Net. Extensive experiments conducted on synthetic datasets and real-world MOR photos fully validate the superiority of the proposed DEMore-Net. Code is available at https://github.com/yz-wang/DEMore-Net.

cs.CV↗

arXiv2023

PointGame: Geometrically and Adaptively Masked Auto-Encoder on Point Clouds

Self-supervised learning is attracting large attention in point cloud understanding. However, exploring discriminative and transferable features still remains challenging due to their nature of irregularity and sparsity. We propose a geometrically and adaptively masked auto-encoder for self-supervised learning on point clouds, termed \textit{PointGame}. PointGame contains two core components: GATE and EAT. GATE stands for the geometrical and adaptive token embedding module; it not only absorbs the conventional wisdom of geometric descriptors that captures the surface shape effectively, but also exploits adaptive saliency to focus on the salient part of a point cloud. EAT stands for the external attention-based Transformer encoder with linear computational complexity, which increases the efficiency of the whole pipeline. Unlike cutting-edge unsupervised learning models, PointGame leverages geometric descriptors to perceive surface shapes and adaptively mines discriminative features from training data. PointGame showcases clear advantages over its competitors on various downstream tasks under both global and local fine-tuning strategies. The code and pre-trained models will be publicly available.

cs.CV↗

arXiv2023

AGConv: Adaptive Graph Convolution on 3D Point Clouds

Convolution on 3D point clouds is widely researched yet far from perfect in geometric deep learning. The traditional wisdom of convolution characterises feature correspondences indistinguishably among 3D points, arising an intrinsic limitation of poor distinctive feature learning. In this paper, we propose Adaptive Graph Convolution (AGConv) for wide applications of point cloud analysis. AGConv generates adaptive kernels for points according to their dynamically learned features. Compared with the solution of using fixed/isotropic kernels, AGConv improves the flexibility of point cloud convolutions, effectively and precisely capturing the diverse relations between points from different semantic parts. Unlike the popular attentional weight schemes, AGConv implements the adaptiveness inside the convolution operation instead of simply assigning different weights to the neighboring points. Extensive evaluations clearly show that our method outperforms state-of-the-arts of point cloud classification and segmentation on various benchmark datasets.Meanwhile, AGConv can flexibly serve more point cloud analysis approaches to boost their performance. To validate its flexibility and effectiveness, we explore AGConv-based paradigms of completion, denoising, upsampling, registration and circle extraction, which are comparable or even superior to their competitors. Our code is available at https://github.com/hrzhou2/AdaptConv-master.

cs.CV↗

arXiv2022

PointSee: Image Enhances Point Cloud

There is a trend to fuse multi-modal information for 3D object detection (3OD). However, the challenging problems of low lightweightness, poor flexibility of plug-and-play, and inaccurate alignment of features are still not well-solved, when designing multi-modal fusion newtorks. We propose PointSee, a lightweight, flexible and effective multi-modal fusion solution to facilitate various 3OD networks by semantic feature enhancement of LiDAR point clouds assembled with scene images. Beyond the existing wisdom of 3OD, PointSee consists of a hidden module (HM) and a seen module (SM): HM decorates LiDAR point clouds using 2D image information in an offline fusion manner, leading to minimal or even no adaptations of existing 3OD networks; SM further enriches the LiDAR point clouds by acquiring point-wise representative semantic features, leading to enhanced performance of existing 3OD networks. Besides the new architecture of PointSee, we propose a simple yet efficient training strategy, to ease the potential inaccurate regressions of 2D object detection networks. Extensive experiments on the popular outdoor/indoor benchmarks show numerical improvements of our PointSee over twenty-two state-of-the-arts.

cs.CV↗

arXiv2022

Semi-UFormer: Semi-supervised Uncertainty-aware Transformer for Image Dehazing

Image dehazing is fundamental yet not well-solved in computer vision. Most cutting-edge models are trained in synthetic data, leading to the poor performance on real-world hazy scenarios. Besides, they commonly give deterministic dehazed images while neglecting to mine their uncertainty. To bridge the domain gap and enhance the dehazing performance, we propose a novel semi-supervised uncertainty-aware transformer network, called Semi-UFormer. Semi-UFormer can well leverage both the real-world hazy images and their uncertainty guidance information. Specifically, Semi-UFormer builds itself on the knowledge distillation framework. Such teacher-student networks effectively absorb real-world haze information for quality dehazing. Furthermore, an uncertainty estimation block is introduced into the model to estimate the pixel uncertainty representations, which is then used as a guidance signal to help the student network produce haze-free images more accurately. Extensive experiments demonstrate that Semi-UFormer generalizes well from synthetic to real-world images.

cs.CV↗