This is the accepted version of the following article: John, N.W., Day, T.W., & Wardle, T. (2020). An Endoscope Interface for Immersive Virtual Reality. Eurographics Workshop on Visualization for Biology and Medicine, Eurographics Association, which has been published in final form at http://onlinelibrary.wiley.com. This article may be used for non-commercial purposes in accordance with the Wiley Self-Archiving Policy
{"title":"An Endoscope Interface for Immersive Virtual Reality","authors":"N. John, Thomas W. Day, Terrence Wardle","doi":"10.2312/vcbm.20201167","DOIUrl":"https://doi.org/10.2312/vcbm.20201167","url":null,"abstract":"This is the accepted version of the following article: John, N.W., Day, T.W., & Wardle, T. (2020). An Endoscope Interface for Immersive Virtual Reality. Eurographics Workshop on Visualization for Biology and Medicine, Eurographics Association, which has been published in final form at \u0000http://onlinelibrary.wiley.com. This article may be used for non-commercial purposes in accordance with \u0000the Wiley Self-Archiving Policy","PeriodicalId":88872,"journal":{"name":"Eurographics Workshop on Visual Computing for Biomedicine","volume":"1 1","pages":"25-29"},"PeriodicalIF":0.0,"publicationDate":"2020-08-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"45353140","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Uncertainty-aware Brain Lesion Visualization","authors":"C. Gillmann, D. Saur, T. Wischgoll, K. Hoffmann, H. Hagen, Ross Maciejewski, G. Scheuermann","doi":"10.2312/vcbm.20201176","DOIUrl":"https://doi.org/10.2312/vcbm.20201176","url":null,"abstract":",","PeriodicalId":88872,"journal":{"name":"Eurographics Workshop on Visual Computing for Biomedicine","volume":"56 1","pages":"97-101"},"PeriodicalIF":0.0,"publicationDate":"2020-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"75168419","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
B. Behrendt, L. Piotrowski, S. Saalfeld, B. Preim, P. Saalfeld
The exploration of time-dependent measured or simulated blood flow is challenging due to the complex three-dimensional structure of vessels and blood flow patterns. Especially on a 2D screen, understanding their full shape and interacting with them is difficult. Critical regions do not always stand out in the visualization and may easily be missed without proper interaction and filtering techniques. The FlowLens [GNBP11] was introduced as a focus-and-context technique to explore one specific blood flow parameter in the context of other parameters for the purpose of treatment planning. With the recent availability of affordable VR glasses it is possible to adapt the concepts of the FlowLens into immersive VR and make them available to a broader group of users. Translating the concept of the Flow Lens to VR leads to a number of design decisions not only based around what functions to include, but also how they can be made available to the user. In this paper, we present a configurable focus-and-context visualization for the use with virtual reality headsets and controllers that allows users to freely explore blood flow data within a VR environment. The advantage of such a solution is the improved perception of the complex spatial structures that results from being surrounded by them instead of observing through a small screen. CCS Concepts • Human-centered computing → Interaction techniques; Scientific visualization; Visualization systems and tools; • Computing methodologies → Virtual reality;
{"title":"The Virtual Reality Flow Lens for Blood Flow Exploration","authors":"B. Behrendt, L. Piotrowski, S. Saalfeld, B. Preim, P. Saalfeld","doi":"10.2312/vcbm.20201169","DOIUrl":"https://doi.org/10.2312/vcbm.20201169","url":null,"abstract":"The exploration of time-dependent measured or simulated blood flow is challenging due to the complex three-dimensional structure of vessels and blood flow patterns. Especially on a 2D screen, understanding their full shape and interacting with them is difficult. Critical regions do not always stand out in the visualization and may easily be missed without proper interaction and filtering techniques. The FlowLens [GNBP11] was introduced as a focus-and-context technique to explore one specific blood flow parameter in the context of other parameters for the purpose of treatment planning. With the recent availability of affordable VR glasses it is possible to adapt the concepts of the FlowLens into immersive VR and make them available to a broader group of users. Translating the concept of the Flow Lens to VR leads to a number of design decisions not only based around what functions to include, but also how they can be made available to the user. In this paper, we present a configurable focus-and-context visualization for the use with virtual reality headsets and controllers that allows users to freely explore blood flow data within a VR environment. The advantage of such a solution is the improved perception of the complex spatial structures that results from being surrounded by them instead of observing through a small screen. CCS Concepts • Human-centered computing → Interaction techniques; Scientific visualization; Visualization systems and tools; • Computing methodologies → Virtual reality;","PeriodicalId":88872,"journal":{"name":"Eurographics Workshop on Visual Computing for Biomedicine","volume":"20 1","pages":"37-41"},"PeriodicalIF":0.0,"publicationDate":"2020-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"72912093","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Marco Agus, Khaled A. Althelaya, C. Calì, M. Boido, Yin Yang, G. Pintore, E. Gobbetti, J. Schneider
We present a shape processing framework for visual exploration of cellular nuclear envelopes extracted from histology images. The framework is based on a novel shape descriptor of closed contours relying on a geodesically uniform resampling of discrete curves to allow for discrete differential-geometry-based computation of unsigned curvature at vertices and edges. Our descriptor is, by design, invariant under translation, rotation and parameterization. Moreover, it additionally offers the option for uniform-scale-invariance. The optional scale-invariance is achieved by scaling features to z-scores, while invariance under parameterization shifts is achieved by using elliptic Fourier analysis (EFA) on the resulting curvature vectors. These invariant shape descriptors provide an embedding into a fixed-dimensional feature space that can be utilized for various applications: (i) as input features for deep and shallow learning techniques; (ii) as input for dimension reduction schemes for providing a visual reference for clustering collection of shapes. The capabilities of the proposed framework are demonstrated in the context of visual analysis and unsupervised classification of histology images. CCS Concepts • Applied computing → Imaging; • Computing methodologies → Shape representations; Cluster analysis;
{"title":"InShaDe: Invariant Shape Descriptors for Visual Analysis of Histology 2D Cellular and Nuclear Shapes","authors":"Marco Agus, Khaled A. Althelaya, C. Calì, M. Boido, Yin Yang, G. Pintore, E. Gobbetti, J. Schneider","doi":"10.2312/vcbm.20201173","DOIUrl":"https://doi.org/10.2312/vcbm.20201173","url":null,"abstract":"We present a shape processing framework for visual exploration of cellular nuclear envelopes extracted from histology images. The framework is based on a novel shape descriptor of closed contours relying on a geodesically uniform resampling of discrete curves to allow for discrete differential-geometry-based computation of unsigned curvature at vertices and edges. Our descriptor is, by design, invariant under translation, rotation and parameterization. Moreover, it additionally offers the option for uniform-scale-invariance. The optional scale-invariance is achieved by scaling features to z-scores, while invariance under parameterization shifts is achieved by using elliptic Fourier analysis (EFA) on the resulting curvature vectors. These invariant shape descriptors provide an embedding into a fixed-dimensional feature space that can be utilized for various applications: (i) as input features for deep and shallow learning techniques; (ii) as input for dimension reduction schemes for providing a visual reference for clustering collection of shapes. The capabilities of the proposed framework are demonstrated in the context of visual analysis and unsupervised classification of histology images. CCS Concepts • Applied computing → Imaging; • Computing methodologies → Shape representations; Cluster analysis;","PeriodicalId":88872,"journal":{"name":"Eurographics Workshop on Visual Computing for Biomedicine","volume":"21 1 1","pages":"61-70"},"PeriodicalIF":0.0,"publicationDate":"2020-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"78143536","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
P. Saalfeld, Aylin Albrecht, W. D'Hanis, H. Rothkötter, B. Preim
We present a VR-based prototype for learning the hand anatomy. The prototype is designed to support embodied cognition, i.e., a learning process based on movements. The learner employs the prototype in VR by moving their own hand and fingers and observing how the virtual anatomical hand model mirrors this movement. The display of anatomical systems and their names can be adjusted. The prototype is deployed on the Oculus Quest and uses its native hand tracking capabilities to obtain the hand posture of the user. The potential of the prototype is shown with a small user study. CCS Concepts • Human-centered computing → Interaction devices; Visualization; • Computing methodologies → Virtual reality;
{"title":"Learning Hand Anatomy with Sense of Embodiment","authors":"P. Saalfeld, Aylin Albrecht, W. D'Hanis, H. Rothkötter, B. Preim","doi":"10.2312/vcbm.20201170","DOIUrl":"https://doi.org/10.2312/vcbm.20201170","url":null,"abstract":"We present a VR-based prototype for learning the hand anatomy. The prototype is designed to support embodied cognition, i.e., a learning process based on movements. The learner employs the prototype in VR by moving their own hand and fingers and observing how the virtual anatomical hand model mirrors this movement. The display of anatomical systems and their names can be adjusted. The prototype is deployed on the Oculus Quest and uses its native hand tracking capabilities to obtain the hand posture of the user. The potential of the prototype is shown with a small user study. CCS Concepts • Human-centered computing → Interaction devices; Visualization; • Computing methodologies → Virtual reality;","PeriodicalId":88872,"journal":{"name":"Eurographics Workshop on Visual Computing for Biomedicine","volume":"16 1","pages":"43-47"},"PeriodicalIF":0.0,"publicationDate":"2020-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"80760011","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Simon Leistikow, A. Nahardani, V. Hoerr, L. Linsen
{"title":"Interactive Visual Similarity Analysis of Measured and Simulated Multi-field Tubular Flow Ensembles","authors":"Simon Leistikow, A. Nahardani, V. Hoerr, L. Linsen","doi":"10.2312/vcbm.20201180","DOIUrl":"https://doi.org/10.2312/vcbm.20201180","url":null,"abstract":"","PeriodicalId":88872,"journal":{"name":"Eurographics Workshop on Visual Computing for Biomedicine","volume":"50 1","pages":"139-150"},"PeriodicalIF":0.0,"publicationDate":"2020-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"74249987","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
We present ANEULYSIS, a system to improve risk assessment and treatment planning of cerebral aneurysms. Aneurysm treatment must be carefully examined as there is a risk of fatal outcome during surgery. Aneurysm growth, rupture, and treatment success depend on the interplay of vascular morphology and hemodynamics. Blood flow simulations can obtain the patient-specific hemodynamics. However, analyzing the time-dependent, multi-attribute data is time-consuming and error-prone. ANEULYSIS supports the analysis and visual exploration of aneurysm data including morphological and hemodynamic attributes. Since this is an interdisciplinary process involving both physicians and fluid mechanics experts, we provide a redundancy-free management of aneurysm data sets according to a consistent structure. Major contributions are an improved analysis of morphological aspects, simultaneous evaluation of walland flow-related characteristics as well as multiple attributes on the vessel wall, the assessment of mechanical wall processes as well as an automatic classification of the internal flow behavior. It was designed and evaluated in collaboration with domain experts who confirmed its usefulness and clinical necessity. CCS Concepts • Computing methodologies → Computer Graphics; • Computer Applications → Life and Medical Sciences;
{"title":"Aneulysis - A System for Aneurysm Data Analysis","authors":"M. Meuschke, R. Wickenhöfer, B. Preim, K. Lawonn","doi":"10.2312/vcbm.20201179","DOIUrl":"https://doi.org/10.2312/vcbm.20201179","url":null,"abstract":"We present ANEULYSIS, a system to improve risk assessment and treatment planning of cerebral aneurysms. Aneurysm treatment must be carefully examined as there is a risk of fatal outcome during surgery. Aneurysm growth, rupture, and treatment success depend on the interplay of vascular morphology and hemodynamics. Blood flow simulations can obtain the patient-specific hemodynamics. However, analyzing the time-dependent, multi-attribute data is time-consuming and error-prone. ANEULYSIS supports the analysis and visual exploration of aneurysm data including morphological and hemodynamic attributes. Since this is an interdisciplinary process involving both physicians and fluid mechanics experts, we provide a redundancy-free management of aneurysm data sets according to a consistent structure. Major contributions are an improved analysis of morphological aspects, simultaneous evaluation of walland flow-related characteristics as well as multiple attributes on the vessel wall, the assessment of mechanical wall processes as well as an automatic classification of the internal flow behavior. It was designed and evaluated in collaboration with domain experts who confirmed its usefulness and clinical necessity. CCS Concepts • Computing methodologies → Computer Graphics; • Computer Applications → Life and Medical Sciences;","PeriodicalId":88872,"journal":{"name":"Eurographics Workshop on Visual Computing for Biomedicine","volume":"19 1","pages":"127-138"},"PeriodicalIF":0.0,"publicationDate":"2020-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"74522207","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Real-Time Visualization of 3D Amyloid-Beta Fibrils from 2D Cryo-EM Density Maps","authors":"H. Kniesel, T. Ropinski, P. Hermosilla","doi":"10.2312/vcbm.20201178","DOIUrl":"https://doi.org/10.2312/vcbm.20201178","url":null,"abstract":"","PeriodicalId":88872,"journal":{"name":"Eurographics Workshop on Visual Computing for Biomedicine","volume":"2 1","pages":"115-125"},"PeriodicalIF":0.0,"publicationDate":"2020-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"75165703","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Interactive Classification of Multi-Shell Diffusion MRI With Features From a Dual-Branch CNN Autoencoder","authors":"Agajan Torayev, T. Schultz","doi":"10.2312/vcbm.20201165","DOIUrl":"https://doi.org/10.2312/vcbm.20201165","url":null,"abstract":"","PeriodicalId":88872,"journal":{"name":"Eurographics Workshop on Visual Computing for Biomedicine","volume":"104 1","pages":"1-11"},"PeriodicalIF":0.0,"publicationDate":"2020-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"82631153","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Sebastian Wagner, K. Illner, Matthias Weber, B. Preim, P. Saalfeld
Specific phobias are among the most common mental diseases, affecting the lives of millions of people. Yet, many cases remain untreated and even undiagnosed, partly due to entry barriers such as waiting times and inconvenience of therapy. To improve the therapeutic options and convenience for the treatment of specific phobias, we implemented a virtual reality application for treating acrophobia (fear of heights) with in-virtuo exposure therapy. Our concept is based on principles from psychology and interaction design. This concept is then implemented using the game engine Unity and Oculus Rift headset as a target device for VR display. Our application has a wide range of customization options, which enables it to be personalized to individual patients. In addition, a number of motivational methods are integrated, which are intended to increase patient motivation, as motivation is essential for a successful therapy. CCS Concepts • Human-centered computing → Virtual reality; Interactive systems and tools; Visualization; • Applied computing → Health informatics;
{"title":"VR Acrophobia Treatment - Development of Customizable Acrophobia Inducing Scenarios","authors":"Sebastian Wagner, K. Illner, Matthias Weber, B. Preim, P. Saalfeld","doi":"10.2312/vcbm.20201171","DOIUrl":"https://doi.org/10.2312/vcbm.20201171","url":null,"abstract":"Specific phobias are among the most common mental diseases, affecting the lives of millions of people. Yet, many cases remain untreated and even undiagnosed, partly due to entry barriers such as waiting times and inconvenience of therapy. To improve the therapeutic options and convenience for the treatment of specific phobias, we implemented a virtual reality application for treating acrophobia (fear of heights) with in-virtuo exposure therapy. Our concept is based on principles from psychology and interaction design. This concept is then implemented using the game engine Unity and Oculus Rift headset as a target device for VR display. Our application has a wide range of customization options, which enables it to be personalized to individual patients. In addition, a number of motivational methods are integrated, which are intended to increase patient motivation, as motivation is essential for a successful therapy. CCS Concepts • Human-centered computing → Virtual reality; Interactive systems and tools; Visualization; • Applied computing → Health informatics;","PeriodicalId":88872,"journal":{"name":"Eurographics Workshop on Visual Computing for Biomedicine","volume":"136 1","pages":"49-53"},"PeriodicalIF":0.0,"publicationDate":"2020-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"91119695","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
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