arXiv subjects

Sibo Cheng

Publications and source records attributed to Sibo Cheng.

At least 37 records · Page 2Linked to original sources

arXiv2025

Learning Chaos In A Linear Way

Learning long-term behaviors in chaotic dynamical systems, such as turbulent flows and climate modelling, is challenging due to their inherent instability and unpredictability. These systems exhibit positive Lyapunov exponents, which significantly hinder accurate long-term forecasting. As a result, understanding long-term statistical behavior is far more valuable than focusing on short-term accuracy. While autoregressive deep sequence models have been applied to capture long-term behavior, they often lead to exponentially increasing errors in learned dynamics. To address this, we shift the focus from simple prediction errors to preserving an invariant measure in dissipative chaotic systems. These systems have attractors, where trajectories settle, and the invariant measure is the probability distribution on attractors that remains unchanged under dynamics. Existing methods generate long trajectories of dissipative chaotic systems by aligning invariant measures, but it is not always possible to obtain invariant measures for arbitrary datasets. We propose the Poincare Flow Neural Network (PFNN), a novel operator learning framework designed to capture behaviors of chaotic systems without any explicit knowledge of the invariant measure. PFNN employs an auto-encoder to map the chaotic system to a finite-dimensional feature space, effectively linearizing the chaotic evolution. It then learns the linear evolution operators to match the physical dynamics by addressing two critical properties in dissipative chaotic systems: (1) contraction, the system's convergence toward its attractors, and (2) measure invariance, trajectories on the attractors following a probability distribution invariant to the dynamics. Our experiments on a variety of chaotic systems demonstrate that PFNN has more accurate predictions and physical statistics compared to competitive baselines.

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arXiv2025

Comparative and Interpretative Analysis of CNN and Transformer Models in Predicting Wildfire Spread Using Remote Sensing Data

Facing the escalating threat of global wildfires, numerous computer vision techniques using remote sensing data have been applied in this area. However, the selection of deep learning methods for wildfire prediction remains uncertain due to the lack of comparative analysis in a quantitative and explainable manner, crucial for improving prevention measures and refining models. This study aims to thoroughly compare the performance, efficiency, and explainability of four prevalent deep learning architectures: Autoencoder, ResNet, UNet, and Transformer-based Swin-UNet. Employing a real-world dataset that includes nearly a decade of remote sensing data from California, U.S., these models predict the spread of wildfires for the following day. Through detailed quantitative comparison analysis, we discovered that Transformer-based Swin-UNet and UNet generally outperform Autoencoder and ResNet, particularly due to the advanced attention mechanisms in Transformer-based Swin-UNet and the efficient use of skip connections in both UNet and Transformer-based Swin-UNet, which contribute to superior predictive accuracy and model interpretability. Then we applied XAI techniques on all four models, this not only enhances the clarity and trustworthiness of models but also promotes focused improvements in wildfire prediction capabilities. The XAI analysis reveals that UNet and Transformer-based Swin-UNet are able to focus on critical features such as 'Previous Fire Mask', 'Drought', and 'Vegetation' more effectively than the other two models, while also maintaining balanced attention to the remaining features, leading to their superior performance. The insights from our thorough comparative analysis offer substantial implications for future model design and also provide guidance for model selection in different scenarios.

cs.CV↗

arXiv2025

Machine learning for modelling unstructured grid data in computational physics: a review

Unstructured grid data are essential for modelling complex geometries and dynamics in computational physics. Yet, their inherent irregularity presents significant challenges for conventional machine learning (ML) techniques. This paper provides a comprehensive review of advanced ML methodologies designed to handle unstructured grid data in high-dimensional dynamical systems. Key approaches discussed include graph neural networks, transformer models with spatial attention mechanisms, interpolation-integrated ML methods, and meshless techniques such as physics-informed neural networks. These methodologies have proven effective across diverse fields, including fluid dynamics and environmental simulations. This review is intended as a guidebook for computational scientists seeking to apply ML approaches to unstructured grid data in their domains, as well as for ML researchers looking to address challenges in computational physics. It places special focus on how ML methods can overcome the inherent limitations of traditional numerical techniques and, conversely, how insights from computational physics can inform ML development. To support benchmarking, this review also provides a summary of open-access datasets of unstructured grid data in computational physics. Finally, emerging directions such as generative models with unstructured data, reinforcement learning for mesh generation, and hybrid physics-data-driven paradigms are discussed to inspire future advancements in this evolving field.

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arXiv2024

Fire-Image-DenseNet (FIDN) for predicting wildfire burnt area using remote sensing data

Predicting the extent of massive wildfires once ignited is essential to reduce the subsequent socioeconomic losses and environmental damage, but challenging because of the complexity of fire behaviour. Existing physics-based models are limited in predicting large or long-duration wildfire events. Here, we develop a deep-learning-based predictive model, Fire-Image-DenseNet (FIDN), that uses spatial features derived from both near real-time and reanalysis data on the environmental and meteorological drivers of wildfire. We trained and tested this model using more than 300 individual wildfires that occurred between 2012 and 2019 in the western US. In contrast to existing models, the performance of FIDN does not degrade with fire size or duration. Furthermore, it predicts final burnt area accurately even in very heterogeneous landscapes in terms of fuel density and flammability. The FIDN model showed higher accuracy, with a mean squared error (MSE) about 82% and 67% lower than those of the predictive models based on cellular automata (CA) and the minimum travel time (MTT) approaches, respectively. Its structural similarity index measure (SSIM) averages 97%, outperforming the CA and FlamMap MTT models by 6% and 2%, respectively. Additionally, FIDN is approximately three orders of magnitude faster than both CA and MTT models. The enhanced computational efficiency and accuracy advancements offer vital insights for strategic planning and resource allocation for firefighting operations.

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arXiv2024

Spatially-Aware Diffusion Models with Cross-Attention for Global Field Reconstruction with Sparse Observations

Diffusion models have gained attention for their ability to represent complex distributions and incorporate uncertainty, making them ideal for robust predictions in the presence of noisy or incomplete data. In this study, we develop and enhance score-based diffusion models in field reconstruction tasks, where the goal is to estimate complete spatial fields from partial observations. We introduce a condition encoding approach to construct a tractable mapping mapping between observed and unobserved regions using a learnable integration of sparse observations and interpolated fields as an inductive bias. With refined sensing representations and an unraveled temporal dimension, our method can handle arbitrary moving sensors and effectively reconstruct fields. Furthermore, we conduct a comprehensive benchmark of our approach against a deterministic interpolation-based method across various static and time-dependent PDEs. Our study attempts to addresses the gap in strong baselines for evaluating performance across varying sampling hyperparameters, noise levels, and conditioning methods. Our results show that diffusion models with cross-attention and the proposed conditional encoding generally outperform other methods under noisy conditions, although the deterministic method excels with noiseless data. Additionally, both the diffusion models and the deterministic method surpass the numerical approach in accuracy and computational cost for the steady problem. We also demonstrate the ability of the model to capture possible reconstructions and improve the accuracy of fused results in covariance-based correction tasks using ensemble sampling.

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arXiv2024

IMITATE: Clinical Prior Guided Hierarchical Vision-Language Pre-training

In the field of medical Vision-Language Pre-training (VLP), significant efforts have been devoted to deriving text and image features from both clinical reports and associated medical images. However, most existing methods may have overlooked the opportunity in leveraging the inherent hierarchical structure of clinical reports, which are generally split into `findings' for descriptive content and `impressions' for conclusive observation. Instead of utilizing this rich, structured format, current medical VLP approaches often simplify the report into either a unified entity or fragmented tokens. In this work, we propose a novel clinical prior guided VLP framework named IMITATE to learn the structure information from medical reports with hierarchical vision-language alignment. The framework derives multi-level visual features from the chest X-ray (CXR) images and separately aligns these features with the descriptive and the conclusive text encoded in the hierarchical medical report. Furthermore, a new clinical-informed contrastive loss is introduced for cross-modal learning, which accounts for clinical prior knowledge in formulating sample correlations in contrastive learning. The proposed model, IMITATE, outperforms baseline VLP methods across six different datasets, spanning five medical imaging downstream tasks. Comprehensive experimental results highlight the advantages of integrating the hierarchical structure of medical reports for vision-language alignment. The code related to this paper is available at https://github.com/cheliu-computation/IMITATE-TMI2024.

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arXiv2024

G2D: From Global to Dense Radiography Representation Learning via Vision-Language Pre-training

Recently, medical vision-language pre-training (VLP) has reached substantial progress to learn global visual representation from medical images and their paired radiology reports. However, medical imaging tasks in real world usually require finer granularity in visual features. These tasks include visual localization tasks (e.g., semantic segmentation, object detection) and visual grounding task. Yet, current medical VLP methods face challenges in learning these fine-grained features, as they primarily focus on brute-force alignment between image patches and individual text tokens for local visual feature learning, which is suboptimal for downstream dense prediction tasks. In this work, we propose a new VLP framework, named \textbf{G}lobal to \textbf{D}ense level representation learning (G2D) that achieves significantly improved granularity and more accurate grounding for the learned features, compared to existing medical VLP approaches. In particular, G2D learns dense and semantically-grounded image representations via a pseudo segmentation task parallel with the global vision-language alignment. Notably, generating pseudo segmentation targets does not incur extra trainable parameters: they are obtained on the fly during VLP with a parameter-free processor. G2D achieves superior performance across 6 medical imaging tasks and 25 diseases, particularly in semantic segmentation, which necessitates fine-grained, semantically-grounded image features. In this task, G2D surpasses peer models even when fine-tuned with just 1\% of the training data, compared to the 100\% used by these models. The code can be found in https://github.com/cheliu-computation/G2D-NeurIPS24/tree/main.

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arXiv2024

Accurate deep learning-based filtering for chaotic dynamics by identifying instabilities without an ensemble

We investigate the ability to discover data assimilation (DA) schemes meant for chaotic dynamics with deep learning. The focus is on learning the analysis step of sequential DA, from state trajectories and their observations, using a simple residual convolutional neural network, while assuming the dynamics to be known. Experiments are performed with the Lorenz 96 dynamics, which display spatiotemporal chaos and for which solid benchmarks for DA performance exist. The accuracy of the states obtained from the learned analysis approaches that of the best possibly tuned ensemble Kalman filter, and is far better than that of variational DA alternatives. Critically, this can be achieved while propagating even just a single state in the forecast step. We investigate the reason for achieving ensemble filtering accuracy without an ensemble. We diagnose that the analysis scheme actually identifies key dynamical perturbations, mildly aligned with the unstable subspace, from the forecast state alone, without any ensemble-based covariances representation. This reveals that the analysis scheme has learned some multiplicative ergodic theorem associated to the DA process seen as a non-autonomous random dynamical system.

nlin.CD↗

arXiv2024

Dynamical system prediction from sparse observations using deep neural networks with Voronoi tessellation and physics constraint

Despite the success of various methods in addressing the issue of spatial reconstruction of dynamical systems with sparse observations, spatio-temporal prediction for sparse fields remains a challenge. Existing Kriging-based frameworks for spatio-temporal sparse field prediction fail to meet the accuracy and inference time required for nonlinear dynamic prediction problems. In this paper, we introduce the Dynamical System Prediction from Sparse Observations using Voronoi Tessellation (DSOVT) framework, an innovative methodology based on Voronoi tessellation which combines convolutional encoder-decoder (CED) and long short-term memory (LSTM) and utilizing Convolutional Long Short-Term Memory (ConvLSTM). By integrating Voronoi tessellations with spatio-temporal deep learning models, DSOVT is adept at predicting dynamical systems with unstructured, sparse, and time-varying observations. CED-LSTM maps Voronoi tessellations into a low-dimensional representation for time series prediction, while ConvLSTM directly uses these tessellations in an end-to-end predictive model. Furthermore, we incorporate physics constraints during the training process for dynamical systems with explicit formulas. Compared to purely data-driven models, our physics-based approach enables the model to learn physical laws within explicitly formulated dynamics, thereby enhancing the robustness and accuracy of rolling forecasts. Numerical experiments on real sea surface data and shallow water systems clearly demonstrate our framework's accuracy and computational efficiency with sparse and time-varying observations.

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arXiv2024

TorchDA: A Python package for performing data assimilation with deep learning forward and transformation functions

Data assimilation techniques are often confronted with challenges handling complex high dimensional physical systems, because high precision simulation in complex high dimensional physical systems is computationally expensive and the exact observation functions that can be applied in these systems are difficult to obtain. It prompts growing interest in integrating deep learning models within data assimilation workflows, but current software packages for data assimilation cannot handle deep learning models inside. This study presents a novel Python package seamlessly combining data assimilation with deep neural networks to serve as models for state transition and observation functions. The package, named TorchDA, implements Kalman Filter, Ensemble Kalman Filter (EnKF), 3D Variational (3DVar), and 4D Variational (4DVar) algorithms, allowing flexible algorithm selection based on application requirements. Comprehensive experiments conducted on the Lorenz 63 and a two-dimensional shallow water system demonstrate significantly enhanced performance over standalone model predictions without assimilation. The shallow water analysis validates data assimilation capabilities mapping between different physical quantity spaces in either full space or reduced order space. Overall, this innovative software package enables flexible integration of deep learning representations within data assimilation, conferring a versatile tool to tackle complex high dimensional dynamical systems across scientific domains.

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arXiv2024

Deep learning surrogate models of JULES-INFERNO for wildfire prediction on a global scale

Global wildfire models play a crucial role in anticipating and responding to changing wildfire regimes. JULES-INFERNO is a global vegetation and fire model simulating wildfire emissions and area burnt on a global scale. However, because of the high data dimensionality and system complexity, JULES-INFERNO's computational costs make it challenging to apply to fire risk forecasting with unseen initial conditions. Typically, running JULES-INFERNO for 30 years of prediction will take several hours on High Performance Computing (HPC) clusters. To tackle this bottleneck, two data-driven models are built in this work based on Deep Learning techniques to surrogate the JULES-INFERNO model and speed up global wildfire forecasting. More precisely, these machine learning models take global temperature, vegetation density, soil moisture and previous forecasts as inputs to predict the subsequent global area burnt on an iterative basis. Average Error per Pixel (AEP) and Structural Similarity Index Measure (SSIM) are used as metrics to evaluate the performance of the proposed surrogate models. A fine tuning strategy is also proposed in this work to improve the algorithm performance for unseen scenarios. Numerical results show a strong performance of the proposed models, in terms of both computational efficiency (less than 20 seconds for 30 years of prediction on a laptop CPU) and prediction accuracy (with AEP under 0.3\% and SSIM over 98\% compared to the outputs of JULES-INFERNO).

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arXiv2024

Med-UniC: Unifying Cross-Lingual Medical Vision-Language Pre-Training by Diminishing Bias

The scarcity of data presents a critical obstacle to the efficacy of medical visionlanguage pre-training (VLP). A potential solution lies in the combination of datasets from various language communities. Nevertheless, the main challenge stems from the complexity of integrating diverse syntax and semantics, language-specific medical terminology, and culture-specific implicit knowledge. Therefore, one crucial aspect to consider is the presence of community bias caused by different languages. This paper presents a novel framework named Unifying Cross-Lingual Medical Vision-Language Pre-Training (Med-UniC), designed to integrate multimodal medical data from the two most prevalent languages, English and Spanish. Specifically, we propose Cross-lingual Text Alignment Regularization (CTR) to explicitly unify cross-lingual semantic representations of medical reports originating from diverse language communities. CTR is optimized through latent language disentanglement, rendering our optimization objective to not depend on negative samples, thereby significantly mitigating the bias from determining positive-negative sample pairs within analogous medical reports. Furthermore, it ensures that the cross-lingual representation is not biased toward any specific language community. Med-UniC reaches superior performance across 5 medical image tasks and 10 datasets encompassing over 30 diseases, offering a versatile framework for unifying multi-modal medical data within diverse linguistic communities. The experimental outcomes highlight the presence of community bias in cross-lingual VLP. Reducing this bias enhances the performance not only in vision-language tasks but also in uni-modal visual tasks.

cs.CL↗

arXiv2024

Explainable Global Wildfire Prediction Models using Graph Neural Networks

Wildfire prediction has become increasingly crucial due to the escalating impacts of climate change. Traditional CNN-based wildfire prediction models struggle with handling missing oceanic data and addressing the long-range dependencies across distant regions in meteorological data. In this paper, we introduce an innovative Graph Neural Network (GNN)-based model for global wildfire prediction. We propose a hybrid model that combines the spatial prowess of Graph Convolutional Networks (GCNs) with the temporal depth of Long Short-Term Memory (LSTM) networks. Our approach uniquely transforms global climate and wildfire data into a graph representation, addressing challenges such as null oceanic data locations and long-range dependencies inherent in traditional models. Benchmarking against established architectures using an unseen ensemble of JULES-INFERNO simulations, our model demonstrates superior predictive accuracy. Furthermore, we emphasise the model's explainability, unveiling potential wildfire correlation clusters through community detection and elucidating feature importance via Integrated Gradient analysis. Our findings not only advance the methodological domain of wildfire prediction but also underscore the importance of model transparency, offering valuable insights for stakeholders in wildfire management.

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arXiv2024

Multi-fidelity physics constrained neural networks for dynamical systems

Physics-constrained neural networks are commonly employed to enhance prediction robustness compared to purely data-driven models, achieved through the inclusion of physical constraint losses during the model training process. However, one of the major challenges of physics-constrained neural networks consists of the training complexity especially for high-dimensional systems. In fact, conventional physics-constrained models rely on singular-fidelity data necessitating the assessment of physical constraints within high-dimensional fields, which introduces computational difficulties. Furthermore, due to the fixed input size of the neural networks, employing multi-fidelity training data can also be cumbersome. In this paper, we propose the Multi-Scale Physics-Constrained Neural Network (MSPCNN), which offers a novel methodology for incorporating data with different levels of fidelity into a unified latent space through a customised multi-fidelity autoencoder. Additionally, multiple decoders are concurrently trained to map latent representations of inputs into various fidelity physical spaces. As a result, during the training of predictive models, physical constraints can be evaluated within low-fidelity spaces, yielding a trade-off between training efficiency and accuracy. In addition, unlike conventional methods, MSPCNN also manages to employ multi-fidelity data to train the predictive model. We assess the performance of MSPCNN in two fluid dynamics problems, namely a two-dimensional Burgers' system and a shallow water system. Numerical results clearly demonstrate the enhancement of prediction accuracy and noise robustness when introducing physical constraints in low-fidelity fields. On the other hand, as expected, the training complexity can be significantly reduced by computing physical constraint loss in the low-fidelity field rather than the high-fidelity one.

cs.LG↗

arXiv2024

Freeze the backbones: A Parameter-Efficient Contrastive Approach to Robust Medical Vision-Language Pre-training

Modern healthcare often utilises radiographic images alongside textual reports for diagnostics, encouraging the use of Vision-Language Self-Supervised Learning (VL-SSL) with large pre-trained models to learn versatile medical vision representations. However, most existing VL-SSL frameworks are trained end-to-end, which is computation-heavy and can lose vital prior information embedded in pre-trained encoders. To address both issues, we introduce the backbone-agnostic Adaptor framework, which preserves medical knowledge in pre-trained image and text encoders by keeping them frozen, and employs a lightweight Adaptor module for cross-modal learning. Experiments on medical image classification and segmentation tasks across three datasets reveal that our framework delivers competitive performance while cutting trainable parameters by over 90% compared to current pre-training approaches. Notably, when fine-tuned with just 1% of data, Adaptor outperforms several Transformer-based methods trained on full datasets in medical image segmentation.

cs.CV↗

arXiv2023

Spectral Cross-Domain Neural Network with Soft-adaptive Threshold Spectral Enhancement

Electrocardiography (ECG) signals can be considered as multi-variable time-series. The state-of-the-art ECG data classification approaches, based on either feature engineering or deep learning techniques, treat separately spectral and time domains in machine learning systems. No spectral-time domain communication mechanism inside the classifier model can be found in current approaches, leading to difficulties in identifying complex ECG forms. In this paper, we proposed a novel deep learning model named Spectral Cross-domain neural network (SCDNN) with a new block called Soft-adaptive threshold spectral enhancement (SATSE), to simultaneously reveal the key information embedded in spectral and time domains inside the neural network. More precisely, the domain-cross information is captured by a general Convolutional neural network (CNN) backbone, and different information sources are merged by a self-adaptive mechanism to mine the connection between time and spectral domains. In SATSE, the knowledge from time and spectral domains is extracted via the Fast Fourier Transformation (FFT) with soft trainable thresholds in modified Sigmoid functions. The proposed SCDNN is tested with several classification tasks implemented on the public ECG databases \textit{PTB-XL} and \textit{MIT-BIH}. SCDNN outperforms the state-of-the-art approaches with a low computational cost regarding a variety of metrics in all classification tasks on both databases, by finding appropriate domains from the infinite spectral mapping. The convergence of the trainable thresholds in the spectral domain is also numerically investigated in this paper. The robust performance of SCDNN provides a new perspective to exploit knowledge across deep learning models from time and spectral domains. The repository can be found: https://github.com/DL-WG/SCDNN-TS

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arXiv2023

Efficient deep data assimilation with sparse observations and time-varying sensors

Variational Data Assimilation (DA) has been broadly used in engineering problems for field reconstruction and prediction by performing a weighted combination of multiple sources of noisy data. In recent years, the integration of deep learning (DL) techniques in DA has shown promise in improving the efficiency and accuracy in high-dimensional dynamical systems. Nevertheless, existing deep DA approaches face difficulties in dealing with unstructured observation data, especially when the placement and number of sensors are dynamic over time. We introduce a novel variational DA scheme, named Voronoi-tessellation Inverse operator for VariatIonal Data assimilation (VIVID), that incorporates a DL inverse operator into the assimilation objective function. By leveraging the capabilities of the Voronoi-tessellation and convolutional neural networks, VIVID is adept at handling sparse, unstructured, and time-varying sensor data. Furthermore, the incorporation of the DL inverse operator establishes a direct link between observation and state space, leading to a reduction in the number of minimization steps required for DA. Additionally, VIVID can be seamlessly integrated with Proper Orthogonal Decomposition (POD) to develop an end-to-end reduced-order DA scheme, which can further expedite field reconstruction. Numerical experiments in a fluid dynamics system demonstrate that VIVID can significantly outperform existing DA and DL algorithms. The robustness of VIVID is also accessed through the application of various levels of prior error, the utilization of varying numbers of sensors, and the misspecification of error covariance in DA.

cs.LG↗

arXiv2023

ETP: Learning Transferable ECG Representations via ECG-Text Pre-training

In the domain of cardiovascular healthcare, the Electrocardiogram (ECG) serves as a critical, non-invasive diagnostic tool. Although recent strides in self-supervised learning (SSL) have been promising for ECG representation learning, these techniques often require annotated samples and struggle with classes not present in the fine-tuning stages. To address these limitations, we introduce ECG-Text Pre-training (ETP), an innovative framework designed to learn cross-modal representations that link ECG signals with textual reports. For the first time, this framework leverages the zero-shot classification task in the ECG domain. ETP employs an ECG encoder along with a pre-trained language model to align ECG signals with their corresponding textual reports. The proposed framework excels in both linear evaluation and zero-shot classification tasks, as demonstrated on the PTB-XL and CPSC2018 datasets, showcasing its ability for robust and generalizable cross-modal ECG feature learning.

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