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        "title": "QuadStream: A Quad-Based Scene Streaming Architecture for Novel Viewpoint Reconstruction",
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        "title": "Predicting and Communicating Outcome of COVID-19 Hospitalizations with Medical Image and Clinical Data",
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        "abstract": "We propose a visual analytics framework to support the prediction, analysis, and communication of COVID-19 hospitalization outcomes. Although several real-world data sets about COVID-19 are openly available, most of the current research focuses on the detection of the disease through chest X-ray images. Until now, no previous work exists on combining insights from medical image data with knowledge extracted from clinical data, predicting the likelihood of an intensive care unit (ICU) visit, ventilation, or decease. Moreover, available literature has not yet focused on communicating such results to the broader society. To support the prediction, analysis, and communication of the outcomes of COVID-19 hospitalizations on the basis of a publicly available data set comprising both electronic health data and medical image data Saltz et al. [2021], we conduct the following three steps: (1) automated segmentation of the available X-ray images and processing of clinical data, (2) development of a model for the prediction of disease outcomes and a comparison to state-of-the-art prediction scores for both data sources, i.e., medical images and clinical data, and (3) the communication of outcomes to three different user groups (namely, medical and clinical experts, experts in data analytics, and the general population) through an interactive dashboard. The dashboard is designed to enable users to solve user-specific tasks, also defined in this work. Preliminary results indicate that the prediction results are improved by combining medical image data with clinical data, while analysis and communication of hospitalization outcomes prove to be a wide and significant topic in the context of COVID-19 prevention.",
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        "abstract": "Osteoarthritis (OA) is a slowly degenerative joint disease, with cartilage loss as one of the most characteristic symptoms accompanied by pain and functional disability. The knee region is the most affected area. 22.9% of the worldwide population over the age of 40 were affected in 2020 by Knee Osteoarthritis (KOA). Besides normal KOA, which develops over multiple years, the accelerated form of KOA (AKOA) develops between 1 and 4 years and is accompanied by increased pain and movement restrictions as well as a higher chance of obtaining a knee replacement. The development of AKOA is not yet predictable on the basis of a single X-ray image because there is no apparent optical difference between the baseline X-ray of KOA and AKOA. Since Convolutional Neural Networks (CNN) can identify image structures that a human eye can not see, I want to realise an early diagnosis of AKOA by using a Convolutional Neural Network (CNN) as a classifier between slow- and fast-progressing KOA.For this purpose, I used the data from three different studies, including a knee X-ray, Body Mass Index (BMI), age, gender, Western Ontario and McMaster Universities Arthritis Index (WOMAC) scores, hip symptoms, knee medication injection and Kellgren- Lawrence (KL)-grade, as input for binary classification models. I defined AKOA once with Joint Space Narrowing (JSN) > 10%/ 2 years and once with JSN > 20%/ 2 years and performed different experiments in order to find the best method to predict AKOA. I trained the numeric data only on an Extreme Gradient Boosting (XGBoost) model. Here I achieved the highest performance of an Area Under the Curve (AUC) of 0.6616 when including the Osteoarthritis Research Society International (OARSI) score of sclerosis and osteophytosis to the numeric input data (20% JSN/ 2 years). To use image data only and the combination of both, I created different CNN models, whose architecture is based on a Residual Network (ResNet) 50 model provided by Image Biopsy Lab (IBLab). The CNN model, which I trained only with image data, yielded an AUC of 56.26% (10% JSN/ 2 years). Using the image data complemented with the most important numeric features (gender, BMI, contralateral KOA, KL-grade) as input, I achieved an AUC of 68.78% (20% JSN/ 2 years). Comparable results, but obtained with other class definitions than in this work, were higher and yielded AUCs of around 0.8.These results show that it is possible to make a risk assessment about the development of AKOA using the baseline X-ray image, gender, BMI, the KL-grade and the information about contralateral KOA. Until now, radiologists are not capable of predicting fast-progressing KOA. Hence, these networks have a great potential to be used as AKOA prediction tools.",
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        "title": "Advanced Computational Design – digitale Methoden für die frühe Entwurfsphase",
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        "abstract": "Advanced Computational Design. The SFB Advanced Computational Design addresses the research question of how to advance design tools and processes through multi- and interdisciplinary basic research. We will develop advanced computational design tools in order to improve design quality and efficiency of processes in architecture and construction. The proposed research is structured in three areas: design methodology (A1), visual and haptic design interaction (A2) and form finding (A3). A1 focuses on the conceptual basis for new digital methods of design based on machine learning. A1 also acts as a platform for integrating and evaluating the computational tools and methods developed in A2 and A3. A2 investigates real-time global-illumination and optimization algorithms for lighting design, as well as a new method for large-scale haptic interactions in virtual reality. In A3, form finding will be explored regarding geometric, mechanical and material constraints, in particular: paneling of complex shapes by patches of certain surface classes while optimizing the number of molds; algorithms for finding new transformable quad-surfaces; mechanical models for an efficient simulation of bio-composite material systems. Furthermore, new ways of form finding will be explored through physical experiments, which will allow for reconsidering model assumptions and constraints, validating the developed algorithmic approaches, and finding new ones.",
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        "title": "Breast cancer patient characterisation and visualisation using deep learning and fisher information networks",
        "date": "2022-08-17",
        "abstract": "Breast cancer is the most commonly diagnosed female malignancy globally, with better survival rates if diagnosed early. Mammography is the gold standard in screening programmes for breast cancer, but despite technological advances, high error rates are still reported. Machine learning techniques, and in particular deep learning (DL), have been successfully used for breast cancer detection and classification. However, the added complexity that makes DL models so successful reduces their ability to explain which features are relevant to the model, or whether the model is biased. The main aim of this study is to propose a novel visualisation to help characterise breast cancer patients using Fisher Information Networks on features extracted from mammograms using a DL model. In the proposed visualisation, patients are mapped out according to their similarities and can be used to study new patients as a 'patient-like-me' approach. When applied to the CBIS-DDSM dataset, it was shown that it is a competitive methodology that can (i) facilitate the analysis and decision-making process in breast cancer diagnosis with the assistance of the FIN visualisations and 'patient-like-me' analysis, and (ii) help improve diagnostic accuracy and reduce overdiagnosis by identifying the most likely diagnosis based on clinical similarities with neighbouring patients.",
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        "title": "Visual analysis of blow molding machine multivariate time series data",
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        "title": "Visual Analysis of the Prediction of ATP-Matches",
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        "abstract": "Endometrial cancer is the most common and most lethal gynecologic malignancy world-wide. Multiple MRI sequences are acquired per patient in gynecologic cancer research because they reveal diﬀerent tissue characteristics. Radiomic tumor proﬁling extracts features from medical imaging data aiming to ﬁnd new tumor imaging biomarkers. Co-registration and tumor segmentation of multi-sequential MRI data build the base for radiomic tumor proﬁling. Many approaches exist that aim to automate these time-consuming manual processes. After automatic co-registration, volumes are often still misaligned. This lack of registration quality has an impact on the results of radiomic tumor proﬁling, since we cannot ensure voxel integrity.\nWe distinguish between rigid and deformable registration. Rigid registration transforms a volume using only translation and rotation parameters, while deformable registration can include local deformations. Tumors are rigid structures compared to the tissue around them. Therefore, rigid co-registration can be suﬃcient to align tumors. However, to analyze also surrounding structures, deformable registration is necessary. Even though tumors are rigid structures, they can appear slightly diﬀerent in the varying sequences due to imaging physics. Applying deformable registration to the whole image can result in tumor deformations that do not resemble the underlying biological tissue characteristics and can alter important information about tumor tissue characteristics.\nTo address these two problems, we propose the web-based application MuSIC (Multi-Sequential Interactive Co-registration). The tool allows medical experts to co-register multiple sequences simultaneously based on a pre-deﬁned segmentation mask that has been generated for one of the sequences. In our workﬂow, a simulated-annealing-based shape matching algorithm searches for the tumor position in each sequence that can vary in translation and rotation parameters. We present the updated segmentation positions to the user, who can interactively adapt the positions if needed. We include multi-modal visualization techniques for visual quality assessment during this procedure. Based on the positioning of the segmentation masks, we register the volumes. We allow for both rigid and deformable co-registration. Due to our approach based on segmentation masks, we apply local transformations mainly outside the tumor tissue in deformable registration.\nWe evaluate our approach in a usability analysis with medical and machine learning experts. They ﬁnd the tool very intuitive and especially the medical experts clearly see themselves using MuSIC in the future.",
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        "title": "Watertight Incremental Heightfield Tessellation",
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        "abstract": "In this paper, we propose a method for the interactive visualization of medium-scale dynamic heightfields without visual artifacts. Our data fall into a category too large to be rendered directly at full resolution, but small enough to fit into GPU memory without pre-filtering and data streaming. We present the real-world use case of unfiltered flood simulation data of such medium scale that need to be visualized in real time for scientific purposes. Our solution facilitates compute shaders to maintain a guaranteed watertight triangulation in GPU memory that approximates the interpolated heightfields with view-dependent, continuous levels of detail. In each frame, the triangulation is updated incrementally by iteratively refining the cached result of the previous frame to minimize the computational effort. In particular, we minimize the number of heightfield sampling operations to make adaptive and higher-order interpolations viable options. We impose no restriction on the number of subdivisions and the achievable level of detail to allow for extreme zoom ranges required in geospatial visualization. Our method provides a stable runtime performance and can be executed with a limited time budget. We present a comparison of our method to three state-of-the-art methods, in which our method is competitive to previous non-watertight methods in terms of runtime, while outperforming them in terms of accuracy.",
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        "title": "Curve/Surface Reconstruction and Occlusion-enabled Applications",
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        "abstract": "Curve reconstruction from unstructured points in a plane is a fundamental problem with many applications that has generated research interest for decades. Involved aspects like handling open, sharp, multiple, and non-manifold outlines, runtime, and provability as well as its extension to 3D for surface reconstruction have led to many different algorithms. The presented algorithms spans the range from improved interpolation of manifold curves over fitting noisy points with better accuracy, requiring fewer points for successful reconstruction to proving the lower limit of required samples with regard to local feature size, or provable statistical accuracy for noise-infected samples. A new sampling condition is introduced that can be expressed as a simple function of the long-standing epsilon-sampling, and permits to reconstruct curves with even fewer samples. As a side product, an algorithm for sampling curves is designed as well. A survey paper compares this body of work with all related work in this now mature field and includes an open source benchmark that allows to easily evaluate competing algorithms in multiple aspects and highlights their relative strengths. For selected 2D algorithms, extensions to 3D are given, as well as offering many novel perspectives for 3D reconstruction, where important open problems remain. As a different topic, when visualizing point clouds, occlusion can be inferred for almost free by exploiting the fact that point clouds representing surfaces are inherently 2D and squashing them in a view-based 2D data structure. This permits novel real-time methods on large point clouds such as collision detection, surface processing like cutting or editing, and efficient exploration.\n\n",
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        "abstract": "Position-Based Fluids (PBF) are a Lagrangian fluid-simulation method and are an implementation of Smoothed Particle Hydrodynamics integrated into the Position-Based Dynamics (PBD) framework. In PBD, constraints applied to object positions are used to enforce a variety of physical laws. In the case of PBF, the fluid is represented by particles and constraints are added that prevent fluid compression. The original PBF method defines all particles to be of equal mass and rest density. In this thesis, we propose a method for generalizing PBF to allow particles to represent varying amounts of fluid. This enables the fluid to be simulated with regionally varying levels of detail with the intent to reduce memory consumption and to increase performance. For each fluid region, we compute the targeted level of detail based on its distance to the fluid boundary, and use merging and splitting strategies to adapt the particles accordingly. We discuss the relation of the particle density to the kernel width used in PBF and provide several approaches for adapting the kernel width to fit the local level of detail. The advantages and disadvantages of each approach are evaluated and a streamlined implementation-variant is proposed which has advantageous properties for larger bodies of fluid. This streamlined solution bases the kernel width entirely on the boundary distance. Its approach is mathematically analyzed in regard to the expected number of particles and neighbor pairs for varying fluid body sizes. The mathematical analysis as well as measurements done in our test implementation show that while our method might increase the neighbor pair count for shallow fluids, it greatly reduces the number of particles and neighbor pairs if the fluid is sufficiently deep, giving the opportunity to significantly lower the computational effort in these cases.",
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        "abstract": "Visual error metrics play a fundamental role in the quantification of perceived image similarity. Most recently, use cases for them in real-time applications have emerged, such as content-adaptive shading and shading reuse to increase performance and improve efficiency. A wide range of different metrics has been established, with the most sophisticated being capable of capturing the perceptual characteristics of the human visual system. However, their complexity, computational expense, and reliance on reference images to compare against prevent their generalized use in real-time, restricting such applications to using only the simplest available metrics.\n\nIn this work, we explore the abilities of convolutional neural networks to predict a variety of visual metrics without requiring either reference or rendered images. Specifically, we train and deploy a neural network to estimate the visual error resulting from reusing shading or using reduced shading rates. The resulting models account for 70%--90% of the variance while achieving up to an order of magnitude faster computation times. Our solution combines image-space information that is readily available in most state-of-the-art deferred shading pipelines with reprojection from previous frames to enable an adequate estimate of visual errors, even in previously unseen regions. We describe a suitable convolutional network architecture and considerations for data preparation for training. We demonstrate the capability of our network to predict complex error metrics at interactive rates in a real-time application that implements content-adaptive shading in a deferred pipeline. Depending on the portion of unseen image regions, our approach can achieve up to 2x performance compared to state-of-the-art methods.",
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        "title": "Construction and Visualization of Gaussian Mixture Models from Point Clouds for 3D Object Representation",
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        "title": "Preface",
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        "abstract": "This February 2022 issue of the IEEE Transactions on Visualization and Computer Graphics (TVCG) contains the proceedings of IEEE VIS 2021, held online on October 24-29, 2021, with General Chairs from Tulane University and Universidade de Sao Paulo. With IEEE VIS 2021, the conference series is in its 32nd year.",
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        "abstract": "Digital terrain surveying is the exploration of terrain reconstructions and quantitative analysis of their properties. Out-of-core techniques, such as terrain streaming, are required to perform surveying on large-scale terrains at interactive frame-rates.The polyline based surveying tool from PRo3D, one of the state-of-the-art solutions for planetary geology, was implemented in our tool Visionary. In PRo3D the polylines are subsampled using fixed-rate subsampling (FRSS) at equidistant points. Our method uses variable-rate subsampling (VRSS) and shared-edge detection (SED) as an improvement that finds exact results when neighbouring primitives are hit. Furthermore, an uncertainty metric On-Data Ratio (ODR) was presented to raise awareness about the uncertainty of these measurements. Visionary was developed in the Unity game engine to evaluate if it is a suitable framework for such a specialized tool. We evaluated our implementation against Pro3D.",
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        "title": "MuSIC: Multi-sequential interactive co-registration for cancer imaging data based on segmentation masks",
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        "abstract": "In gynecologic cancer imaging, multiple magnetic resonance imaging (MRI) sequences are acquired per patient to reveal different tissue characteristics. However, after image acquisition, the anatomical structures can be misaligned in the various sequences due to changing patient location in the scanner and organ movements. The co-registration process aims to align the sequences to allow for multi-sequential tumor imaging analysis. However, automatic co-registration often leads to unsatisfying results. To address this problem, we propose the web-based application MuSIC (Multi-Sequential Interactive Co-registration). The approach allows medical experts to co-register multiple sequences simultaneously based on a pre-defined segmentation mask generated for one of the sequences. Our contributions lie in our proposed workflow. First, a shape matching algorithm based on dual annealing searches for the tumor position in each sequence. The user can then interactively adapt the proposed segmentation positions if needed. During this procedure, we include a multi-modal magic lens visualization for visual quality assessment. Then, we register the volumes based on the segmentation mask positions. We allow for both rigid and deformable registration. Finally, we conducted a usability analysis with seven medical and machine learning experts to verify the utility of our approach. Our participants highly appreciate the multi-sequential setup and see themselves using MuSIC in the future.",
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        "title": "Statistical methodologies for assessing an artificial intelligence (AI) software in a diagnostic setting",
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        "abstract": "The radiological determination of bone age (BA) from a left-hand x-ray continues to be the reference standard for skeletal maturity assessment related to short or long stature, and underlying conditions. Artificial (AI) algorithms are becoming more prevalent due to the subjectivity and time-consuming nature of BA assessment. Therefore, we proposed methods and statistical recommendations in assessing standalone performance of an AI tool. Our strategy was verified in a retrospective study using the AI model, PANDA, a fully automated AI software used to estimate bone age (BA) on hand radiographs. We analyzed radiographs of 342 patients retrospectively. Three board-certified pediatric radiologists made blind reads of BA using the Greulich & Pyle (GP) method independently. The AI-software, PANDA, was subsequently used to provide automated estimations of BA from the same set of images. The ground truth was established based on the mean of the estimations. We assessed agreement of AI with readers based on comparison of Bland-Altman limits of agreement (LOA), orthogonal linear regression, and interchangeability.Bland-Altman assessment displayed a mean difference between readers and AI to be -0.72 with 95% CI (-1.46; 0.02) months displaying no fixed bias. Using orthogonal linear regression, the slope between readers and AI software was reported to be 1.02 95% CI (1.00, 1.03). No proportional bias was observed. The square root of the absolute value of the equivalence index of the AI software compared to assessments made by readers was observed to be -5.8 months. This indicates that the AI software is interchangeable with expert readers. The proposed framework is generalizable to the other applications aside from bone age. If one wants to find bias between two techniques of measurement, regression analysis should be performed. If the purpose is to see if one method may be safely replaced by another, especially in clinical practice, Bland-Altman plot is preferred. If there is no adequate reference standard to compare to, interchangeability can be used. This statistical method does not rely on a reference standard.",
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        "title": "Understanding the impact of statistical and machine learning choices on predictive models for radiotherapy",
        "date": "2022",
        "abstract": "During radiotherapy (RT) planning, an accurate description of the location and shape of the pelvic organs is a critical factor for the successful treatment of the patient. Yet, during treatment, the pelvis anatomy may differ significantly from the planning phase. A series of recent publications, such as PREVIS [FMCM∗21], have examined alternative approaches to analyzing and predicting pelvic organ variability of individual patients. These approaches are based on a combination of several statistical and machine learning methods, which have not been thoroughly and quantitatively evaluated within the scope of pelvic anatomical variability. Several of their design decisions could have an impact on the outcome of the predictive model. The goal of this work is to assess the impact of alternative choices, focusing mainly on the two key-aspects of shape description and clustering, to generate better predictions for new patients. The results of our assessment indicate that resolution-based descriptors provide more accurate and reliable organ representations than state-of-the-art approaches, while different clustering settings (distance metric and linkage) yield only slightly different clusters. Different clustering methods are able to provide comparable results, although when more shape variability is considered their results start to deviate. These results are valuable for understanding the impact of statistical and machine learning choices on the outcomes of predictive models for anatomical variability.",
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        "title": "Multi-faceted Visual Analysis of Inter-Observer Variability",
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        "abstract": "Despite the advancements in auto-segmentation tools, manual delineation is still necessary in the medical field. For example, tumor segmentation is a crucial step in cancer radiotherapy and is still widely performed by hand by experienced radiologists. However, the opinions of experienced radiologists might differ, for a multitude of reasons. In this work, we visualize the variability originating from multiple experts delineating medical scans of the same patient, known as inter-observer variability.The novelty of this work consists of capturing the process of segmenting a target object. The focus lies in gaining insight into the observer’s thought processes and reasoning strategies. To investigate these aspects of segmenting we conduct a data acquisitionwith novice users and experts, capturing their thoughts in a think-aloud protocol and their areas of attention by tracking their mouse-movement during the segmentation process. This data is visualized with our Multi Observer Looking Environment (MOLE).MOLE allows to gain deep insight into the observers’ segmentation process and enables to compare different segmentation outcomes and how these occurred. With our proposed visualization techniques we emphasize regions of uncertainty that need more attention when delineating. Additionally, relevant keywords are extracted from the think-aloud protocol and aligned with the positions in the segmentation, providing information about the thought process of an observer. We link the initial image to a three-dimensional representation of the delineations and provide more details of the think-aloud protocol on demand.Our approach is universal to segmentation, attention and thought process data regardless of the domain of the data. We show how MOLE can be used with a medical dataset as well as an artificially created dataset. By validating our approach with the help of a medical expert actively working in the field, we define potential use cases in the existing pipeline of tumor delineation for cancer treatment.",
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