arXiv subjects

Amirhossein Bayat

Publications and source records attributed to Amirhossein Bayat.

11 recordsLinked to original sources

arXiv2026

Density-based topology optimization for turbulent fluid flow using the standard k-epsilon RANS model with wall-functions imposed through an implicit wall penalty formulation

Turbulent flows have high requirements for very fine meshes near the boundary to ensure accuracy. In the context of topology optimization (TO), such fine meshes become unrealistic and common approaches are hampered by low accuracy and overestimation of boundary layer thickness. Wall-functions are a natural way to ease the computational requirements, but they are not naturally imposed in density-based TO due to the diffuse design parametrization. We propose an implicit wall-function formulation for the Reynolds-Averaged Navier-Stokes (RANS), standard k-epsilon model that extracts wall-normal information directly from the gradient of the design variable and enables a penalty-based formulation for imposing wall-functions to the RANS equations, without the need for body-fitted meshes. The method provides a reliable route to high Reynolds number turbulent topology optimization, delivering boundary layer accuracy comparable to explicit-wall body-fitted analyses, while retaining the flexibility of density-based TO. Furthermore, because wall effects are modeled using wall-functions, accurate solutions are obtained on substantially coarser meshes, leading to significant reductions in computational cost. The approach is validated on three canonical benchmarks over Reynolds numbers up to Re = 2e5: a pipe-bend; a U-bend; and a Tesla-valve. Across all cases, the proposed method accurately recovers near-wall velocity profiles, closely matching verification simulations on body-fitted meshes with explicit wall-functions. In contrast, a conventional turbulent TO formulation, without the proposed wall-function treatment, mispredicts boundary-layer development and yields sub-optimal results.

physics.flu-dyn↗

arXiv2025

Effects of Linear Modulation of Electrotactile Signals Using a Novel Device on Sensation Naturalness and Perceptual Intensity

Electrotactile feedback is a promising method for delivering haptic sensations, but challenges such as the naturalness of sensations hinder its adoption in commercial devices. In this study, we introduce a novel device that enables the exploration of complex stimulation signals to enhance sensation naturalness. We designed six stimulation signals with linearly modulated frequency, amplitude, or both, across two frequency levels based on a ramp-and-hold shape, aiming to replicate sensation of pressing a button. Our results showed that these modulated signals achieve higher naturalness scores than tonic stimulations, with a 6.8% improvement. Moreover, we examined the relationship between perceived intensity and signal energy for these stimulation patterns. Our findings indicate that, under conditions of constant perceived intensity, signal energy is not uniform across different stimulation patterns. Instead, there is a distinct relationship between the energy levels of different patterns, which is consistently reflected in the energy of the stimulations selected by the participants. Based on our findings, we propose a predictive model that estimates the desired intensity for any stimulation pattern using this relationship between signal energies and the user's preferred intensity for a single reference pattern. This model demonstrated high reliability, with a mean R2 score of 83.33%. Using this approach, intensity calibration for different stimulation patterns can be streamlined, reducing calibration time by 87.5%, as only one out of eight reference pattern must be calibrated. These findings highlight the potential of stimulation signal modulation to improve sensation quality and validate the viability of our predictive model for automating intensity calibration. This approach is an essential step toward delivering complex and naturalistic sensations in advanced haptic systems.

cs.HC↗

arXiv2024

QUBIQ: Uncertainty Quantification for Biomedical Image Segmentation Challenge

Uncertainty in medical image segmentation tasks, especially inter-rater variability, arising from differences in interpretations and annotations by various experts, presents a significant challenge in achieving consistent and reliable image segmentation. This variability not only reflects the inherent complexity and subjective nature of medical image interpretation but also directly impacts the development and evaluation of automated segmentation algorithms. Accurately modeling and quantifying this variability is essential for enhancing the robustness and clinical applicability of these algorithms. We report the set-up and summarize the benchmark results of the Quantification of Uncertainties in Biomedical Image Quantification Challenge (QUBIQ), which was organized in conjunction with International Conferences on Medical Image Computing and Computer-Assisted Intervention (MICCAI) 2020 and 2021. The challenge focuses on the uncertainty quantification of medical image segmentation which considers the omnipresence of inter-rater variability in imaging datasets. The large collection of images with multi-rater annotations features various modalities such as MRI and CT; various organs such as the brain, prostate, kidney, and pancreas; and different image dimensions 2D-vs-3D. A total of 24 teams submitted different solutions to the problem, combining various baseline models, Bayesian neural networks, and ensemble model techniques. The obtained results indicate the importance of the ensemble models, as well as the need for further research to develop efficient 3D methods for uncertainty quantification methods in 3D segmentation tasks.

eess.IV↗

arXiv2022

VerSe: A Vertebrae Labelling and Segmentation Benchmark for Multi-detector CT Images

Vertebral labelling and segmentation are two fundamental tasks in an automated spine processing pipeline. Reliable and accurate processing of spine images is expected to benefit clinical decision-support systems for diagnosis, surgery planning, and population-based analysis on spine and bone health. However, designing automated algorithms for spine processing is challenging predominantly due to considerable variations in anatomy and acquisition protocols and due to a severe shortage of publicly available data. Addressing these limitations, the Large Scale Vertebrae Segmentation Challenge (VerSe) was organised in conjunction with the International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI) in 2019 and 2020, with a call for algorithms towards labelling and segmentation of vertebrae. Two datasets containing a total of 374 multi-detector CT scans from 355 patients were prepared and 4505 vertebrae have individually been annotated at voxel-level by a human-machine hybrid algorithm (https://osf.io/nqjyw/, https://osf.io/t98fz/). A total of 25 algorithms were benchmarked on these datasets. In this work, we present the the results of this evaluation and further investigate the performance-variation at vertebra-level, scan-level, and at different fields-of-view. We also evaluate the generalisability of the approaches to an implicit domain shift in data by evaluating the top performing algorithms of one challenge iteration on data from the other iteration. The principal takeaway from VerSe: the performance of an algorithm in labelling and segmenting a spine scan hinges on its ability to correctly identify vertebrae in cases of rare anatomical variations. The content and code concerning VerSe can be accessed at: https://github.com/anjany/verse.

cs.CV↗

arXiv2021

Federated Multi-Mini-Batch: An Efficient Training Approach to Federated Learning in Non-IID Environments

Federated learning has faced performance and network communication challenges, especially in the environments where the data is not independent and identically distributed (IID) across the clients. To address the former challenge, we introduce the federated-centralized concordance property and show that the federated single-mini-batch training approach can achieve comparable performance as the corresponding centralized training in the Non-IID environments. To deal with the latter, we present the federated multi-mini-batch approach and illustrate that it can establish a trade-off between the performance and communication efficiency and outperforms federated averaging in the Non-IID settings.

cs.LG↗

arXiv2021

Feedback Graph Attention Convolutional Network for Medical Image Enhancement

Artifacts, blur and noise are the common distortions degrading MRI images during the acquisition process, and deep neural networks have been demonstrated to help in improving image quality. To well exploit global structural information and texture details, we propose a novel biomedical image enhancement network, named Feedback Graph Attention Convolutional Network (FB-GACN). As a key innovation, we consider the global structure of an image by building a graph network from image sub-regions that we consider to be node features, linking them non-locally according to their similarity. The proposed model consists of three main parts: 1) The parallel graph similarity branch and content branch, where the graph similarity branch aims at exploiting the similarity and symmetry across different image sub-regions in low-resolution feature space and provides additional priors for the content branch to enhance texture details. 2) A feedback mechanism with a recurrent structure to refine low-level representations with high-level information and generate powerful high-level texture details by handling the feedback connections. 3) A reconstruction to remove the artifacts and recover super-resolution images by using the estimated sub-region correlation priors obtained from the graph similarity branch. We evaluate our method on two image enhancement tasks: i) cross-protocol super resolution of diffusion MRI; ii) artifact removal of FLAIR MR images. Experimental results demonstrate that the proposed algorithm outperforms the state-of-the-art methods.

eess.IV↗

arXiv2021

A Computed Tomography Vertebral Segmentation Dataset with Anatomical Variations and Multi-Vendor Scanner Data

With the advent of deep learning algorithms, fully automated radiological image analysis is within reach. In spine imaging, several atlas- and shape-based as well as deep learning segmentation algorithms have been proposed, allowing for subsequent automated analysis of morphology and pathology. The first Large Scale Vertebrae Segmentation Challenge (VerSe 2019) showed that these perform well on normal anatomy, but fail in variants not frequently present in the training dataset. Building on that experience, we report on the largely increased VerSe 2020 dataset and results from the second iteration of the VerSe challenge (MICCAI 2020, Lima, Peru). VerSe 2020 comprises annotated spine computed tomography (CT) images from 300 subjects with 4142 fully visualized and annotated vertebrae, collected across multiple centres from four different scanner manufacturers, enriched with cases that exhibit anatomical variants such as enumeration abnormalities (n=77) and transitional vertebrae (n=161). Metadata includes vertebral labelling information, voxel-level segmentation masks obtained with a human-machine hybrid algorithm and anatomical ratings, to enable the development and benchmarking of robust and accurate segmentation algorithms.

eess.IV↗

arXiv2021

Inferring the 3D Standing Spine Posture from 2D Radiographs

The treatment of degenerative spinal disorders requires an understanding of the individual spinal anatomy and curvature in 3D. An upright spinal pose (i.e. standing) under natural weight bearing is crucial for such bio-mechanical analysis. 3D volumetric imaging modalities (e.g. CT and MRI) are performed in patients lying down. On the other hand, radiographs are captured in an upright pose, but result in 2D projections. This work aims to integrate the two realms, i.e. it combines the upright spinal curvature from radiographs with the 3D vertebral shape from CT imaging for synthesizing an upright 3D model of spine, loaded naturally. Specifically, we propose a novel neural network architecture working vertebra-wise, termed \emph{TransVert}, which takes orthogonal 2D radiographs and infers the spine's 3D posture. We validate our architecture on digitally reconstructed radiographs, achieving a 3D reconstruction Dice of $95.52\%$, indicating an almost perfect 2D-to-3D domain translation. Deploying our model on clinical radiographs, we successfully synthesise full-3D, upright, patient-specific spine models for the first time.

eess.IV↗

arXiv2020

Cranial Implant Prediction using Low-Resolution 3D Shape Completion and High-Resolution 2D Refinement

Designing of a cranial implant needs a 3D understanding of the complete skull shape. Thus, taking a 2D approach is sub-optimal, since a 2D model lacks a holistic 3D view of both the defective and healthy skulls. Further, loading the whole 3D skull shapes at its original image resolution is not feasible in commonly available GPUs. To mitigate these issues, we propose a fully convolutional network composed of two subnetworks. The first subnetwork is designed to complete the shape of the downsampled defective skull. The second subnetwork upsamples the reconstructed shape slice-wise. We train the 3D and 2D networks together end-to-end, with a hierarchical loss function. Our proposed solution accurately predicts a high-resolution 3D implant in the challenge test case in terms of dice-score and the Hausdorff distance.

eess.IV↗

arXiv2020

Robustification of Segmentation Models Against Adversarial Perturbations In Medical Imaging

This paper presents a novel yet efficient defense framework for segmentation models against adversarial attacks in medical imaging. In contrary to the defense methods against adversarial attacks for classification models which widely are investigated, such defense methods for segmentation models has been less explored. Our proposed method can be used for any deep learning models without revising the target deep learning models, as well as can be independent of adversarial attacks. Our framework consists of a frequency domain converter, a detector, and a reformer. The frequency domain converter helps the detector detects adversarial examples by using a frame domain of an image. The reformer helps target models to predict more precisely. We have experiments to empirically show that our proposed method has a better performance compared to the existing defense method.

eess.IV↗

arXiv2020

A distance-based loss for smooth and continuous skin layer segmentation in optoacoustic images

Raster-scan optoacoustic mesoscopy (RSOM) is a powerful, non-invasive optical imaging technique for functional, anatomical, and molecular skin and tissue analysis. However, both the manual and the automated analysis of such images are challenging, because the RSOM images have very low contrast, poor signal to noise ratio, and systematic overlaps between the absorption spectra of melanin and hemoglobin. Nonetheless, the segmentation of the epidermis layer is a crucial step for many downstream medical and diagnostic tasks, such as vessel segmentation or monitoring of cancer progression. We propose a novel, shape-specific loss function that overcomes discontinuous segmentations and achieves smooth segmentation surfaces while preserving the same volumetric Dice and IoU. Further, we validate our epidermis segmentation through the sensitivity of vessel segmentation. We found a 20 $\%$ improvement in Dice for vessel segmentation tasks when the epidermis mask is provided as additional information to the vessel segmentation network.

eess.IV↗