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Ruud J. G. van Sloun

Publications and source records attributed to Ruud J. G. van Sloun.

At least 37 records · Page 2Linked to original sources
arXiv2025

Dehazing Ultrasound using Diffusion Models

Echocardiography has been a prominent tool for the diagnosis of cardiac disease. However, these diagnoses can be heavily impeded by poor image quality. Acoustic clutter emerges due to multipath reflections imposed by layers of skin, subcutaneous fat, and intercostal muscle between the transducer and heart. As a result, haze and other noise artifacts pose a real challenge to cardiac ultrasound imaging. In many cases, especially with difficult-to-image patients such as patients with obesity, a diagnosis from B-Mode ultrasound imaging is effectively rendered unusable, forcing sonographers to resort to contrast-enhanced ultrasound examinations or refer patients to other imaging modalities. Tissue harmonic imaging has been a popular approach to combat haze, but in severe cases is still heavily impacted by haze. Alternatively, denoising algorithms are typically unable to remove highly structured and correlated noise, such as haze. It remains a challenge to accurately describe the statistical properties of structured haze, and develop an inference method to subsequently remove it. Diffusion models have emerged as powerful generative models and have shown their effectiveness in a variety of inverse problems. In this work, we present a joint posterior sampling framework that combines two separate diffusion models to model the distribution of both clean ultrasound and haze in an unsupervised manner. Furthermore, we demonstrate techniques for effectively training diffusion models on radio-frequency ultrasound data and highlight the advantages over image data. Experiments on both in-vitro and in-vivo cardiac datasets show that the proposed dehazing method effectively removes haze while preserving signals from weakly reflected tissue.

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arXiv2025

Deep Variational Sequential Monte Carlo for High-Dimensional Observations

Sequential Monte Carlo (SMC), or particle filtering, is widely used in nonlinear state-space systems, but its performance often suffers from poorly approximated proposal and state-transition distributions. This work introduces a differentiable particle filter that leverages the unsupervised variational SMC objective to parameterize the proposal and transition distributions with a neural network, designed to learn from high-dimensional observations. Experimental results demonstrate that our approach outperforms established baselines in tracking the challenging Lorenz attractor from high-dimensional and partial observations. Furthermore, an evidence lower bound based evaluation indicates that our method offers a more accurate representation of the posterior distribution.

cs.LG↗
arXiv2025

Deep Sylvester Posterior Inference for Adaptive Compressed Sensing in Ultrasound Imaging

Ultrasound images are commonly formed by sequential acquisition of beam-steered scan-lines. Minimizing the number of required scan-lines can significantly enhance frame rate, field of view, energy efficiency, and data transfer speeds. Existing approaches typically use static subsampling schemes in combination with sparsity-based or, more recently, deep-learning-based recovery. In this work, we introduce an adaptive subsampling method that maximizes intrinsic information gain in-situ, employing a Sylvester Normalizing Flow encoder to infer an approximate Bayesian posterior under partial observation in real-time. Using the Bayesian posterior and a deep generative model for future observations, we determine the subsampling scheme that maximizes the mutual information between the subsampled observations, and the next frame of the video. We evaluate our approach using the EchoNet cardiac ultrasound video dataset and demonstrate that our active sampling method outperforms competitive baselines, including uniform and variable-density random sampling, as well as equidistantly spaced scan-lines, improving mean absolute reconstruction error by 15%. Moreover, posterior inference and the sampling scheme generation are performed in just 0.015 seconds (66Hz), making it fast enough for real-time 2D ultrasound imaging applications.

eess.IV↗
arXiv2024

EvolvED: Evolutionary Embeddings to Understand the Generation Process of Diffusion Models

Diffusion models, widely used in image generation, rely on iterative refinement to generate images from noise. Understanding this data evolution is important for model development and interpretability, yet challenging due to its high-dimensional, iterative nature. Prior works often focus on static or instance-level analyses, missing the iterative and holistic aspects of the generative path. While dimensionality reduction can visualize image evolution for few instances, it does preserve the iterative structure. To address these gaps, we introduce EvolvED, a method that presents a holistic view of the iterative generative process in diffusion models. EvolvED goes beyond instance exploration by leveraging predefined research questions to streamline generative space exploration. Tailored prompts aligned with these questions are used to extract intermediate images, preserving iterative context. Targeted feature extractors trace the evolution of key image attribute evolution, addressing the complexity of high-dimensional outputs. Central to EvolvED is a novel evolutionary embedding algorithm that encodes iterative steps while maintaining semantic relations. It enhances the visualization of data evolution by clustering semantically similar elements within each iteration with t-SNE, grouping elements by iteration, and aligning an instance's elements across iterations. We present rectilinear and radial layouts to represent iterations and support exploration. We apply EvolvED to diffusion models like GLIDE and Stable Diffusion, demonstrating its ability to provide valuable insights into the generative process.

cs.CV↗
arXiv2024

WAND: Wavelet Analysis-based Neural Decomposition of MRS Signals for Artifact Removal

Accurate quantification of metabolites in magnetic resonance spectroscopy (MRS) is challenged by low signal-to-noise ratio (SNR), overlapping metabolites, and various artifacts. Particularly, unknown and unparameterized baseline effects obscure the quantification of low-concentration metabolites, limiting MRS reliability. This paper introduces wavelet analysis-based neural decomposition (WAND), a novel data-driven method designed to decompose MRS signals into their constituent components: metabolite-specific signals, baseline, and artifacts. WAND takes advantage of the enhanced separability of these components within the wavelet domain. The method employs a neural network, specifically a U-Net architecture, trained to predict masks for wavelet coefficients obtained through the continuous wavelet transform. These masks effectively isolate desired signal components in the wavelet domain, which are then inverse-transformed to obtain separated signals. Notably, an artifact mask is created by inverting the sum of all known signal masks, enabling WAND to capture and remove even unpredictable artifacts. The effectiveness of WAND in achieving accurate decomposition is demonstrated through numerical evaluations using simulated spectra. Furthermore, WAND's artifact removal capabilities significantly enhance the quantification accuracy of linear combination model fitting. The method's robustness is further validated using data from the 2016 MRS Fitting Challenge and in-vivo experiments.

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arXiv2024

Sequential Posterior Sampling with Diffusion Models

Diffusion models have quickly risen in popularity for their ability to model complex distributions and perform effective posterior sampling. Unfortunately, the iterative nature of these generative models makes them computationally expensive and unsuitable for real-time sequential inverse problems such as ultrasound imaging. Considering the strong temporal structure across sequences of frames, we propose a novel approach that models the transition dynamics to improve the efficiency of sequential diffusion posterior sampling in conditional image synthesis. Through modeling sequence data using a video vision transformer (ViViT) transition model based on previous diffusion outputs, we can initialize the reverse diffusion trajectory at a lower noise scale, greatly reducing the number of iterations required for convergence. We demonstrate the effectiveness of our approach on a real-world dataset of high frame rate cardiac ultrasound images and show that it achieves the same performance as a full diffusion trajectory while accelerating inference 25$\times$, enabling real-time posterior sampling. Furthermore, we show that the addition of a transition model improves the PSNR up to 8\% in cases with severe motion. Our method opens up new possibilities for real-time applications of diffusion models in imaging and other domains requiring real-time inference.

cs.CV↗
arXiv2024

Investigating and Improving Latent Density Segmentation Models for Aleatoric Uncertainty Quantification in Medical Imaging

Data uncertainties, such as sensor noise, occlusions or limitations in the acquisition method can introduce irreducible ambiguities in images, which result in varying, yet plausible, semantic hypotheses. In Machine Learning, this ambiguity is commonly referred to as aleatoric uncertainty. In image segmentation, latent density models can be utilized to address this problem. The most popular approach is the Probabilistic U-Net (PU-Net), which uses latent Normal densities to optimize the conditional data log-likelihood Evidence Lower Bound. In this work, we demonstrate that the PU-Net latent space is severely sparse and heavily under-utilized. To address this, we introduce mutual information maximization and entropy-regularized Sinkhorn Divergence in the latent space to promote homogeneity across all latent dimensions, effectively improving gradient-descent updates and latent space informativeness. Our results show that by applying this on public datasets of various clinical segmentation problems, our proposed methodology receives up to 11% performance gains compared against preceding latent variable models for probabilistic segmentation on the Hungarian-Matched Intersection over Union. The results indicate that encouraging a homogeneous latent space significantly improves latent density modeling for medical image segmentation.

cs.CV↗
arXiv2024

SubspaceNet: Deep Learning-Aided Subspace Methods for DoA Estimation

Direction of arrival (DoA) estimation is a fundamental task in array processing. A popular family of DoA estimation algorithms are subspace methods, which operate by dividing the measurements into distinct signal and noise subspaces. Subspace methods, such as Multiple Signal Classification (MUSIC) and Root-MUSIC, rely on several restrictive assumptions, including narrowband non-coherent sources and fully calibrated arrays, and their performance is considerably degraded when these do not hold. In this work we propose SubspaceNet; a data-driven DoA estimator which learns how to divide the observations into distinguishable subspaces. This is achieved by utilizing a dedicated deep neural network to learn the empirical autocorrelation of the input, by training it as part of the Root-MUSIC method, leveraging the inherent differentiability of this specific DoA estimator, while removing the need to provide a ground-truth decomposable autocorrelation matrix. Once trained, the resulting SubspaceNet serves as a universal surrogate covariance estimator that can be applied in combination with any subspace-based DoA estimation method, allowing its successful application in challenging setups. SubspaceNet is shown to enable various DoA estimation algorithms to cope with coherent sources, wideband signals, low SNR, array mismatches, and limited snapshots, while preserving the interpretability and the suitability of classic subspace methods.

eess.SP↗
arXiv2024

Off-Grid Ultrasound Imaging by Stochastic Optimization

Ultrasound images formed by delay-and-sum beamforming are plagued by artifacts that only clear up after compounding many transmissions. Some prior works pose imaging as an inverse problem. This approach can yield high image quality with few transmits, but requires a very fine image grid and is not robust to changes in measurement model parameters. We present INverse grid-Free Estimation of Reflectivities (INFER), an off-grid and stochastic algorithm that solves the inverse scattering problem in ultrasound imaging. Our method jointly optimizes for the locations of the gridpoints, their reflectivities, and the measurement model parameters such as the speed of sound. This approach allows us to use significantly fewer gridpoints, while obtaining better contrast and resolution and being more robust to changes in the imaging target and the hardware. The use of stochastic optimization enables solving for multiple transmissions simultaneously without increasing the required memory or computational load per iteration. We show that our method works across different imaging targets and across different transmit schemes and compares favorably against other beamforming and inverse solvers. The source code and the dataset to reproduce the results in this paper are available at www.github.com/vincentvdschaft/off-grid-ultrasound.

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arXiv2024

Residual Quantization with Implicit Neural Codebooks

Vector quantization is a fundamental operation for data compression and vector search. To obtain high accuracy, multi-codebook methods represent each vector using codewords across several codebooks. Residual quantization (RQ) is one such method, which iteratively quantizes the error of the previous step. While the error distribution is dependent on previously-selected codewords, this dependency is not accounted for in conventional RQ as it uses a fixed codebook per quantization step. In this paper, we propose QINCo, a neural RQ variant that constructs specialized codebooks per step that depend on the approximation of the vector from previous steps. Experiments show that QINCo outperforms state-of-the-art methods by a large margin on several datasets and code sizes. For example, QINCo achieves better nearest-neighbor search accuracy using 12-byte codes than the state-of-the-art UNQ using 16 bytes on the BigANN1M and Deep1M datasets.

cs.LG↗
arXiv2023

RTSNet: Learning to Smooth in Partially Known State-Space Models (Preprint)

The smoothing task is core to many signal processing applications. A widely popular smoother is the Rauch-Tung-Striebel (RTS) algorithm, which achieves minimal mean-squared error recovery with low complexity for linear Gaussian state space (SS) models, yet is limited in systems that are only partially known, as well as non-linear and non-Gaussian. In this work we propose RTSNet, a highly efficient model-based and data-driven smoothing algorithm suitable for partially known SS models. RTSNet integrates dedicated trainable models into the flow of the classical RTS smoother, while iteratively refining its sequence estimate via deep unfolding methodology. As a result, RTSNet learns from data to reliably smooth when operating under model mismatch and non-linearities while retaining the efficiency and interpretability of the traditional RTS smoothing algorithm. Our empirical study demonstrates that RTSNet overcomes non-linearities and model mismatch, outperforming classic smoothers operating with both mismatched and accurate domain knowledge. Moreover, while RTSNet is based on compact neural networks, which leads to faster training and inference times, it demonstrates improved performance over previously proposed deep smoothers in non-linear settings.

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arXiv2023

HKF: Hierarchical Kalman Filtering with Online Learned Evolution Priors for Adaptive ECG Denoising

Electrocardiography (ECG) signals play a pivotal role in many healthcare applications, especially in at-home monitoring of vital signs. Wearable technologies, which these applications often depend upon, frequently produce low-quality ECG signals. While several methods exist for ECG denoising to enhance signal quality and aid clinical interpretation, they often underperform with ECG data from wearable technology due to limited noise tolerance or inadequate flexibility in capturing ECG dynamics. This paper introduces HKF, a hierarchical and adaptive Kalman filter, which uses a proprietary state space model to effectively capture both intra- and inter-heartbeat dynamics for ECG signal denoising. HKF learns a patient-specific structured prior for the ECG signal's intra-heartbeat dynamics in an online manner, resulting in a filter that adapts to the specific ECG signal characteristics of each patient. In an empirical study, HKF demonstrated superior denoising performance (reduced mean-squared error) while preserving the unique properties of the waveform. In a comparative analysis, HKF outperformed previously proposed methods for ECG denoising, such as the model-based Kalman filter and data-driven autoencoders. This makes it a suitable candidate for applications in extramural healthcare settings.

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arXiv2023

Ultrasound Signal Processing: From Models to Deep Learning

Medical ultrasound imaging relies heavily on high-quality signal processing to provide reliable and interpretable image reconstructions. Conventionally, reconstruction algorithms where derived from physical principles. These algorithms rely on assumptions and approximations of the underlying measurement model, limiting image quality in settings were these assumptions break down. Conversely, more sophisticated solutions based on statistical modelling, careful parameter tuning, or through increased model complexity, can be sensitive to different environments. Recently, deep learning based methods, which are optimized in a data-driven fashion, have gained popularity. These model-agnostic techniques often rely on generic model structures, and require vast training data to converge to a robust solution. A relatively new paradigm combines the power of the two: leveraging data-driven deep learning, as well as exploiting domain knowledge. These model-based solutions yield high robustness, and require less parameters and training data than conventional neural networks. In this work we provide an overview of these techniques from recent literature, and discuss a wide variety of ultrasound applications. We aim to inspire the reader to further research in this area, and to address the opportunities within the field of ultrasound signal processing. We conclude with a future perspective on model-based deep learning techniques for medical ultrasound.

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arXiv2023

SOM-CPC: Unsupervised Contrastive Learning with Self-Organizing Maps for Structured Representations of High-Rate Time Series

Continuous monitoring with an ever-increasing number of sensors has become ubiquitous across many application domains. However, acquired time series are typically high-dimensional and difficult to interpret. Expressive deep learning (DL) models have gained popularity for dimensionality reduction, but the resulting latent space often remains difficult to interpret. In this work we propose SOM-CPC, a model that visualizes data in an organized 2D manifold, while preserving higher-dimensional information. We address a largely unexplored and challenging set of scenarios comprising high-rate time series, and show on both synthetic and real-life data (physiological data and audio recordings) that SOM-CPC outperforms strong baselines like DL-based feature extraction, followed by conventional dimensionality reduction techniques, and models that jointly optimize a DL model and a Self-Organizing Map (SOM). SOM-CPC has great potential to acquire a better understanding of latent patterns in high-rate data streams.

cs.LG↗
arXiv2023

A Review of Machine Learning Applications for the Proton Magnetic Resonance Spectroscopy Workflow

This literature review presents a comprehensive overview of machine learning (ML) applications in proton magnetic resonance spectroscopy (MRS). As the use of ML techniques in MRS continues to grow, this review aims to provide the MRS community with a structured overview of the state-of-the-art methods. Specifically, we examine and summarize studies published between 2017 and 2023 from major journals in the magnetic resonance field. We categorize these studies based on a typical MRS workflow, including data acquisition, processing, analysis, and artificial data generation. Our review reveals that ML in MRS is still in its early stages, with a primary focus on processing and analysis techniques, and less attention given to data acquisition. We also found that many studies use similar model architectures, with little comparison to alternative architectures. Additionally, the generation of artificial data is a crucial topic, with no consistent method for its generation. Furthermore, many studies demonstrate that artificial data suffers from generalization issues when tested on in-vivo data. We also conclude that risks related to ML models should be addressed, particularly for clinical applications. Therefore, output uncertainty measures and model biases are critical to investigate. Nonetheless, the rapid development of ML in MRS and the promising results from the reviewed studies justify further research in this field.

physics.med-ph↗
arXiv2023

Latent-KalmanNet: Learned Kalman Filtering for Tracking from High-Dimensional Signals

The Kalman filter (KF) is a widely-used algorithm for tracking dynamic systems that are captured by state space (SS) models. The need to fully describe a SS model limits its applicability under complex settings, e.g., when tracking based on visual data, and the processing of high-dimensional signals often induces notable latency. These challenges can be treated by mapping the measurements into latent features obeying some postulated closed-form SS model, and applying the KF in the latent space. However, the validity of this approximated SS model may constitute a limiting factor. In this work, we study tracking from high-dimensional measurements under complex settings using a hybrid model-based/data-driven approach. By gradually tackling the challenges in handling the observations model and the task, we develop Latent-KalmanNet, which implements tracking from high-dimensional measurements by leveraging data to jointly learn the KF along with the latent space mapping. Latent-KalmanNet combines a learned encoder with data-driven tracking in the latent space using the recently proposed-KalmanNet, while identifying the ability of each of these trainable modules to assist its counterpart via providing a suitable prior (by KalmanNet) and by learning a latent representation that facilitates data-aided tracking (by the encoder). Our empirical results demonstrate that the proposed Latent-KalmanNet achieves improved accuracy and run-time performance over both model-based and data-driven techniques by learning a surrogate latent representation that most facilitates tracking, while operating with limited complexity and latency.

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arXiv2023

DA-MUSIC: Data-Driven DoA Estimation via Deep Augmented MUSIC Algorithm

Direction of arrival (DoA) estimation of multiple signals is pivotal in sensor array signal processing. A popular multi-signal DoA estimation method is the multiple signal classification (MUSIC) algorithm, which enables high-performance super-resolution DoA recovery while being highly applicable in practice. MUSIC is a model-based algorithm, relying on an accurate mathematical description of the relationship between the signals and the measurements and assumptions on the signals themselves (non-coherent, narrowband sources). As such, it is sensitive to model imperfections. In this work we propose to overcome these limitations of MUSIC by augmenting the algorithm with specifically designed neural architectures. Our proposed deep augmented MUSIC (DA-MUSIC) algorithm is thus a hybrid model-based/data-driven DoA estimator, which leverages data to improve performance and robustness while preserving the interpretable flow of the classic method. DA-MUSIC is shown to learn to overcome limitations of the purely model-based method, such as its inability to successfully localize coherent sources as well as estimate the number of coherent signal sources present. We further demonstrate the superior resolution of the DA-MUSIC algorithm in synthetic narrowband and broadband scenarios as well as with real-world data of DoA estimation from seismic signals.

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