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Bone Fracture and Lesion Assessment using Shape-Adaptive Unfolding 使用形状自适应展开的骨折和损伤评估
Pub Date : 2017-01-01 DOI: 10.2312/vcbm.20171249
Hannes Martinke, Christian Petry, S. Großkopf, M. Sühling, G. Soza, B. Preim, G. Mistelbauer
The assessment of rib bone fractures and lesions consists of many images that have to be thoroughly inspected slice-by-slice and rib-by-rib. Existing visualization methods, such as curved planar reformation (CPR), reduce the number of images to inspect and, in turn, the time spent per case. However, this task remains time-consuming and exhausting. In this paper, we propose a novel rib unfolding strategy that considers the cross-sectional shape of each rib individually and independently. This leads to shape-adaptive slices through the ribs. By aggregating these slices into a single image, we support radiologists with a concise overview visualization of the entire rib cage for fracture and lesion assessment. We present results of our approach along different cases of rib and spinal fractures as well as lesions. To assess the applicability of our method, we separately evaluated the segmentation (with 954 data sets) and the visualization (with two clinical coaches). CCS Concepts •Human-centered computing → Scientific visualization; •Computing methodologies → Shape analysis; Image processing; •Applied computing → Health informatics;
肋骨骨折和病变的评估包括许多图像,必须彻底检查切片和肋骨。现有的可视化方法,如曲面重构(CPR),减少了需要检查的图像数量,从而减少了每个案例所花费的时间。然而,这项任务仍然费时费力。在本文中,我们提出了一种新的肋展开策略,考虑每个肋的横截面形状单独和独立。这导致肋骨上的形状适应切片。通过将这些切片聚合成一张图像,我们支持放射科医生对整个胸腔进行骨折和病变评估的简明概述可视化。我们目前的结果,我们的方法沿不同的情况下肋骨和脊柱骨折以及病变。为了评估我们方法的适用性,我们分别评估了分割(使用954个数据集)和可视化(使用两个临床教练)。•以人为本的计算→科学可视化;•计算方法→形状分析;图像处理;•应用计算→卫生信息学;
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引用次数: 5
Visualizing and Exploring Dynamic Multichannel EEG Coherence Networks 可视化和探索动态多通道脑电相干网络
Pub Date : 2017-01-01 DOI: 10.2312/vcbm.20171238
Chengtao Ji, J. V. D. Gronde, N. Maurits, J. Roerdink
An electroencephalography (EEG) coherence network represents functional brain connectivity, and is constructed by calculating the coherence between pairs of electrode signals as a function of frequency. Visualization of coherence networks can provide insight into unexpected patterns of cognitive processing and help neuroscientists to understand brain mechanisms. However, visualizing dynamic EEG coherence networks is a challenge for the analysis of brain connectivity, especially when the spatial structure of the network needs to be taken into account. In this paper, we present a design and implementation of a visualization framework for such dynamic networks. First, requirements for supporting typical tasks in the context of dynamic functional connectivity network analysis were collected from neuroscience researchers. In our design, we consider groups of network nodes and their corresponding spatial location for visualizing the evolution of the dynamic coherence network. We introduce an augmented timeline-based representation to provide an overview of the evolution of functional units (FUs) and their spatial location over time. This representation can help the viewer to identify relations between functional connectivity and brain regions, as well as to identify persistent or transient functional connectivity patterns across the whole timewindow. In addition, we modified the FU map representation to facilitate comparison of the behavior of nodes between consecutive FU maps. Our implementation also supports interactive exploration. The usefulness of our visualization design was evaluated by an informal user study. The feedback we received shows that our design supports exploratory analysis tasks well. The method can serve as an preprocessing step before a complete analysis of dynamic EEG coherence networks. CCS Concepts •Applied computing → Life and medical sciences; •Human-centered computing → Information visualization;
脑电图(EEG)相干网络是通过计算电极信号对之间的相干性作为频率的函数来构建的。相干网络的可视化可以提供对认知处理的意外模式的洞察,并帮助神经科学家了解大脑机制。然而,动态脑电相干网络的可视化对脑连通性的分析是一个挑战,特别是当需要考虑网络的空间结构时。在本文中,我们提出了这种动态网络的可视化框架的设计和实现。首先,从神经科学研究者那里收集了动态功能连接网络分析背景下支持典型任务的需求。在我们的设计中,我们考虑了网络节点群及其相应的空间位置,以可视化动态相干网络的演变。我们引入了一个增强的基于时间轴的表示,以提供功能单元(FUs)及其空间位置随时间演变的概述。这种表示可以帮助查看者识别功能连接和大脑区域之间的关系,以及在整个时间窗口中识别持久或短暂的功能连接模式。此外,我们修改了FU映射的表示,以便于在连续的FU映射之间比较节点的行为。我们的实现还支持交互式探索。我们的可视化设计的有用性是通过非正式的用户研究来评估的。我们收到的反馈表明,我们的设计很好地支持探索性分析任务。该方法可作为动态脑电相干网络完整分析前的预处理步骤。•应用计算→生命和医学科学;•以人为本→信息可视化;
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引用次数: 3
Chameleon: Dynamic Color Mapping for Multi-Scale Structural Biology Models. 变色龙:多尺度结构生物学模型的动态颜色映射。
Pub Date : 2016-09-01 DOI: 10.2312/vcbm.20161266
Nicholas Waldin, Mathieu Le Muzic, Manuela Waldner, Eduard Gröller, David Goodsell, Autin Ludovic, Ivan Viola

Visualization of structural biology data uses color to categorize or separate dense structures into particular semantic units. In multiscale models of viruses or bacteria, there are atoms on the finest level of detail, then amino-acids, secondary structures, macromolecules, up to the compartment level and, in all these levels, elements can be visually distinguished by color. However, currently only single scale coloring schemes are utilized that show information for one particular scale only. We present a novel technology which adaptively, based on the current scale level, adjusts the color scheme to depict or distinguish the currently best visible structural information. We treat the color as a visual resource that is distributed given a particular demand. The changes of the color scheme are seamlessly interpolated between the color scheme from the previous views into a given new one. With such dynamic multi-scale color mapping we ensure that the viewer is able to distinguish structural detail that is shown on any given scale. This technique has been tested by users with an expertise in structural biology and has been overall well received.

结构生物学数据的可视化使用颜色将密集结构分类或分离成特定的语义单位。在病毒或细菌的多尺度模型中,有最精细的原子,然后是氨基酸,二级结构,大分子,直到隔室水平,在所有这些水平上,元素都可以通过颜色进行视觉区分。然而,目前只有单一比例的着色方案被利用,只显示一个特定比例的信息。我们提出了一种基于当前尺度的自适应调整配色方案来描绘或区分当前最佳可见结构信息的新技术。我们将颜色视为一种视觉资源,它被分配给特定的需求。配色方案的变化可以无缝地在以前视图的配色方案之间插入到给定的新视图中。有了这种动态的多尺度颜色映射,我们确保观看者能够区分在任何给定的尺度上显示的结构细节。该技术已由具有结构生物学专业知识的用户进行了测试,并且总体上得到了好评。
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引用次数: 13
Motion-moderated Transfer Function for Volume Rendering 4D CMR Data 体绘制4D CMR数据的运动调节传递函数
Pub Date : 2015-09-14 DOI: 10.2312/vcbm.20151212
S. Walton, Min Chen, Cameron Holloway
Cardiovascular Magnetic Resonance (CMR) produces time-varying volume data by combining conventional MRI techniques with ECG gating. It allows physicians to inspect the dynamics of a beating heart, such as myocardium motion and blood flows. Because the material intensity changes over time in a typical CMR scan, this poses a challenging problem in specifying an effective transfer function for depicting the geometry of a beating heart or other moving objects. In this paper, we propose to moderate the traditional transfer function based on intensity and intensity gradient. This enables us to depict the exterior boundary of a beating heart in a temporally consistent manner. We examine several different ways of moderating an intensity-based transfer function, and evaluate these designs in conjunction with practical CMR data. We present a ray-casting pipeline which includes optional flow estimation and a mechanism to assist temporal coherence in animation.
心血管磁共振(CMR)通过将常规MRI技术与心电门控技术相结合,产生时变体积数据。它允许医生检查跳动的心脏的动力学,如心肌运动和血液流动。因为在典型的CMR扫描中,材料强度随着时间的推移而变化,这就提出了一个具有挑战性的问题,即指定一个有效的传递函数来描绘跳动的心脏或其他运动物体的几何形状。本文提出了基于强度和强度梯度对传统传递函数进行调节的方法。这使我们能够以一种时间一致的方式描绘跳动的心脏的外部边界。我们研究了几种不同的调节基于强度的传递函数的方法,并结合实际的CMR数据评估了这些设计。我们提出了一个光线投射管道,其中包括可选的流量估计和一种机制,以协助动画中的时间一致性。
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引用次数: 0
Simulated Motion Artefact in Computed Tomography 计算机断层扫描中的模拟运动伪影
Pub Date : 2015-09-14 DOI: 10.2312/vcbm.20151228
F. Vidal, Pierre-Frédéric Villard
We propose a simulation framework to simulate the computed tomography acquisition process. It includes five components: anatomic data, respiration modelling, automatic parametrisation, X-ray simulation, and tomography reconstruction. It is used to generate motion artefacts in reconstructed CT volumes. Our framework can be used to evaluate CT reconstruction algorithm with motion artefact correction in a controlled environment.
我们提出了一个模拟框架来模拟计算机断层扫描采集过程。它包括五个组成部分:解剖数据,呼吸建模,自动参数化,x射线模拟和断层扫描重建。它用于在重建的CT体中生成运动伪影。我们的框架可用于评估在受控环境下具有运动伪影校正的CT重建算法。
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引用次数: 5
Visualisation of PET data in the Fly Algorithm PET数据在Fly算法中的可视化
Pub Date : 2015-09-14 DOI: 10.2312/vcbm.20151227
Z. Abbood, J. Rocchisani, F. Vidal
We use the Fly algorithm, an artificial evolution strategy, to reconstruct positron emission tomography (PET) images. The algorithm iteratively optimises the position of 3D points. It eventually produces a point cloud, which needs to be voxelised to produce volume data that can be used with conventional medical image software. However, resulting voxel data is noisy. In our test case with 6,400 points the normalised cross-correlation (NCC) between the reference and the reconstruction is 85.53%; with 25,600 points it is 93.60%. This paper introduces a more robust 3D voxelisation method based on implicit modelling using metaballs to overcome this limitation. With metaballs, the NCC with 6,400 points increases up to 92.21%; and up to 96.26% with 25,600 points.
我们使用Fly算法,一种人工进化策略,重建正电子发射断层扫描(PET)图像。该算法迭代优化三维点的位置。它最终产生一个点云,需要对其进行体素化,以产生可与传统医学图像软件一起使用的体积数据。然而,得到的体素数据是有噪声的。在我们的6400个点的测试案例中,参考和重建之间的归一化互相关(NCC)为85.53%;该指数为25600点,为93.60%。本文介绍了一种基于元球隐式建模的三维体素化方法来克服这一限制。加上元球,6400点的NCC增加到92.21%;以25600点收盘,达到96.26%。
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引用次数: 1
Instant Visualization of Secondary Structures of Molecular Models 分子模型二级结构的即时可视化
Pub Date : 2015-09-14 DOI: 10.2312/vcbm.20151208
P. Hermosilla, V. Guallar, À. Vinacua, Pere-Pau Vázquez
Molecular Dynamics simulations are of key importance in the drug design field. Among all possible representations commonly used to inspect these simulations, Ribbons has the advantage of giving the expert a good overview of the conformation of the molecule. Although several techniques have been previously proposed to render ribbons, all of them have limitations in terms of space or calculation time, making them not suitable for real-time interaction with simulation software. In this paper we present a novel adaptive method that generates ribbons in real-time, taking advantage of the tessellation shader. The result is a fast method that requires no precomputation, and that generates high quality shapes and shading.
分子动力学模拟在药物设计领域具有重要意义。在所有通常用于检查这些模拟的可能表示中,ribbon的优点是为专家提供了一个很好的分子构象概述。虽然之前已经提出了几种渲染带状的技术,但它们在空间或计算时间方面都有限制,使得它们不适合与仿真软件进行实时交互。在本文中,我们提出了一种利用镶嵌着色器实时生成条带的自适应方法。结果是一个快速的方法,不需要预计算,并产生高质量的形状和阴影。
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引用次数: 8
SWiFT Seeing the Wood From the Trees: helping people make sense of their health data 从树木中看到木材:帮助人们理解他们的健康数据
Pub Date : 2015-09-14 DOI: 10.2312/vcbm.20151226
Daniel Brown, D. Duce, Rachel Franklin, R. Harrison, Clare E. Martin, Marion Waite
The aim of the SWIFT project is to determine which visualisations of blood glucose-related data on mobile devices are most usable by people with insulin-dependent diabetes, to improve self-management. Such people are often advised to maintain a logbook to record glucose measurements, insulin doses and related information. Software exists for downloading and scrutinising such data, but some people find numerical data difficult to interpret. However, many people find visual data easier to understand. The question of which data visualisations would be most usable for selfmanagement is still open. This study will determine what people with diabetes and clinicians want to learn from their data, and interactive visualisations will be designed accordingly. Interaction allows the users to modify what they see and how they see it. The visualisations will be designed for small screens and tested through the development of a glucose tracking diary app. Some parameters that affect the condition are displayed in figure 1. The '?' indicates that there are open questions about which of these parameters will be of most value to users and how best to visualise them.
SWIFT项目的目的是确定哪些移动设备上的血糖相关数据可视化对胰岛素依赖型糖尿病患者最有用,以改善自我管理。这些人通常被建议保持一个日志记录血糖测量,胰岛素剂量和相关信息。现有的软件可以下载和审查这些数据,但有些人发现数字数据很难解释。然而,许多人发现可视化数据更容易理解。哪种数据可视化对自我管理最有用的问题仍然是开放的。这项研究将确定糖尿病患者和临床医生想从他们的数据中学到什么,并相应地设计交互式可视化。交互允许用户修改他们看到的内容和看到的方式。可视化将设计为小屏幕,并通过开发葡萄糖跟踪日记应用程序进行测试。影响病情的一些参数显示在图1中。“?这表明,这些参数中哪些对用户最有价值,以及如何最好地将它们可视化,这些都是有待解决的问题。
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引用次数: 0
Automated Slice-Based Artery Identification in Various Field-of-View CTA Scans 自动切片动脉识别在各种视野CTA扫描
Pub Date : 2015-09-14 DOI: 10.2312/vcbm.20151215
David Major, A. A. Novikov, M. Wimmer, J. Hladůvka, K. Bühler
Automated identification of main arteries in Computed Tomography Angiography (CTA) scans plays a key role in the initialization of vessel tracking algorithms. Automated vessel tracking tools support physicians in vessel analysis and make their workflow time-efficient. We present a fully-automated framework for identification of five main arteries of three different body regions in various field-of-view CTA scans. Our method detects the two common iliac arteries, the aorta and the two common carotid arteries and delivers seed positions in them. After the field-of-view of a CTA scan is identified, artery candidate positions are regressed slice-wise and the best candidates are selected by Naive Bayes classification. Final artery seed positions are detected by picking the most optimal path over the artery classification results from slice to slice. Our method was evaluated on 20 CTA scans with various field-of-views. The high detection performance on different arteries shows its generality and future applicability for automated vessel analysis systems.
计算机断层血管造影(CTA)扫描中主动脉的自动识别在血管跟踪算法的初始化中起着关键作用。自动化血管跟踪工具支持医生进行血管分析,使他们的工作流程更加省时。我们提出了一个全自动框架,用于在不同视场CTA扫描中识别三个不同身体区域的五条主要动脉。我们的方法检测两条髂总动脉,主动脉和两条颈总动脉并在其中放置种子位置。在CTA扫描的视野被识别后,动脉候选位置被逐片回归,并通过朴素贝叶斯分类选择最佳候选。最终的动脉种子位置是通过在动脉分类结果中选择最优路径来检测的。我们的方法在20个不同视场的CTA扫描上进行了评估。对不同动脉的高检测性能显示了其在自动化血管分析系统中的通用性和未来的适用性。
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引用次数: 2
Haptics-based Modelling of Pigmented Skin Lesions 基于触觉的色素皮肤病变建模
Pub Date : 2015-09-14 DOI: 10.2312/vcbm.20151219
Alejandro Granados, James Bryan, Taha Abdalla, Genevieve Osborne, F. Bello
Dermatology is under-represented in medical undergraduate education with newly graduated doctors not being able to identify common and important skin conditions. In order to become competent in diagnosing skin lesions, it is important to encounter multiple examples of a condition, as they vary between individuals. Three popular lesions have been identified due to their importance, including nodular melanoma, seborrhoeic keratosis and cherry haemangioma. In this paper we propose a haptics-enabled learning tool for pigmented skin lesions based on haptic texturing. Geometrical modelling, skin deformation and haptics modelling are described. Results of the implementation are presented along with an initial validation study comparing the haptics-based simulator with other methods, including temporary tattoos and silicon made models.
皮肤病学在医学本科教育中代表性不足,新毕业的医生无法识别常见和重要的皮肤状况。为了能够胜任诊断皮肤病变,重要的是遇到多种情况的例子,因为它们因人而异。由于其重要性,已经确定了三种常见的病变,包括结节性黑色素瘤,脂溢性角化病和樱桃血管瘤。在本文中,我们提出了一种基于触觉纹理的色素性皮肤病变的触觉学习工具。描述了几何建模、皮肤变形和触觉建模。实现的结果以及初步验证研究将基于触觉的模拟器与其他方法(包括临时纹身和硅制造模型)进行比较。
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引用次数: 1
期刊
Eurographics Workshop on Visual Computing for Biomedicine
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