TY - CHAP A1 - Benger, Werner A1 - Foster, Ian A1 - Novotny, Jason A1 - Seidel, Edward A1 - Shalf, John A1 - Smith, Warren A1 - Walker, Paul T1 - Numerical Relativity in a Distributed Environment T2 - Proceedings of the Ninth SIAM Conference on Parallel Processing for Scientific Computing Y1 - 1999 ER - TY - JOUR A1 - Huisinga, Wilhelm A1 - Best, Christoph A1 - Cordes, Frank A1 - Roitzsch, Rainer A1 - Schütte, Christof T1 - Identification of Molecular Conformations via Statistical Analysis of Simulation Data JF - Comp. Chem. Y1 - 1999 VL - 20 SP - 1760 EP - 1774 ER - TY - CHAP A1 - Hege, Hans-Christian A1 - Stalling, Detlev ED - Hege, Hans-Christian ED - Polthier, Konrad T1 - Fast LIC with Piecewise Polynomial Filter Kernels T2 - Mathematical Visualization - Algorithms and Applications Y1 - 1998 SP - 295 EP - 314 PB - Springer-Verlag Berlin ER - TY - CHAP A1 - Stalling, Detlev A1 - Zöckler, Malte A1 - Hege, Hans-Christian T1 - Segmentation of 3D Medical Images with Subvoxel Accuracy T2 - Proc. CARS ’98 Computer Assisted Radiology and Surgery Y1 - 1998 SP - 137 EP - 142 CY - Tokyo ER - TY - CHAP A1 - Gotthardt, Jörg A1 - Blömer, Carola A1 - Stalling, Detlev T1 - Visualization of Groundwater Flow Using Line Integral Convolution T2 - Proc. ModelCARE 99 Y1 - 1999 CY - ETH Zürich ER - TY - BOOK A1 - Merzky, André T1 - Fernsteuerung und Fernüberwachung von verteilten Anwendungen Y1 - 1999 PB - RRZN, Universität Hannover ER - TY - CHAP A1 - Brandt, Robert A1 - Malun, Dagmar A1 - Steege, A. A1 - Zöckler, Malte A1 - Menzel, Randolf T1 - Three Dimensional Reconstruction of Honey Bee Mushroom Bodies T2 - Annual Meeting of the Society for Neuroscience, Abstr. 25 Y1 - 1999 SP - 861 ER - TY - JOUR A1 - Rein, Karlheinz A1 - Zöckler, Malte A1 - Heisenberg, Martin T1 - A Quantitative Three-Dimensional Model of the Drosophila Optic Lobes JF - Current Biology Y1 - 1999 VL - 9 IS - 2 SP - 93 EP - 96 ER - TY - CHAP A1 - Rein, Karlheinz A1 - Zöckler, Malte A1 - Heisenberg, Martin ED - Schnitzler, H. T1 - Towards a Quantative 3D Model of the Fly Brain T2 - Proc. 27th Göttingen Neurobiology Report Y1 - 1999 SP - 742 PB - G. Thieme Verlag CY - Stuttgart, Germany ER - TY - CHAP A1 - Deuflhard, Peter A1 - Seebaß, Martin ED - Lai, Choi-Hong ED - Bjorstad, Petter ED - Cross, Mark ED - Widlund, Olof T1 - Adaptive Multilevel FEM as Decisive Tools in the Clinical Cancer Therapy Hyerthermia T2 - Proc. Eleventh International Conference on Domain Decomposition Methods in Sciences and Engineering Y1 - 1998 SP - 410 EP - 421 CY - Greenwich, UK ER - TY - GEN A1 - Best, Christoph T1 - A Simple C++ Library for Manipulating Scientific Data Sets as Structured Data Y1 - 1998 PB - ZIB Technical Report TR 98-06 ER - TY - CHAP A1 - Schirmacher, Hartmut A1 - Zöckler, Malte A1 - Stalling, Detlev A1 - Hege, Hans-Christian ED - Girod, Bernd ED - Niemann, Heinrich ED - Seidel, Hans T1 - Boundary Surface Shrinking - a Continuous Approach to 3D Center Line Extraction T2 - Proc. of IMDSP’98, held in Alpbach Y1 - 1998 SP - 25 EP - 28 CY - Austria ER - TY - JOUR A1 - Kühn, Wolfgang T1 - Rigorously Computed Orbits of Dynamical Systems without the Wrapping Effect JF - Computing Y1 - 1998 U6 - https://doi.org/10.1007/BF02684450 VL - 61 IS - 1 SP - 47 EP - 67 ER - TY - JOUR A1 - Kühn, Wolfgang A1 - Kühn, Zuzana T1 - Cutting High Dimensional Cakes JF - American Mathematical Monthly Y1 - 1998 VL - 105 IS - 2 SP - 168 EP - 169 ER - TY - JOUR A1 - Hege, Hans-Christian T1 - Problems and Solutions: Product of Chebyshev Polynomials JF - Orthogonal Polynomials and Special Functions Y1 - 1996 VL - 6 (2) SP - 12 ER - TY - CHAP A1 - Höllerer, Tobias A1 - Tönnies, Klaus A1 - Hege, Hans-Christian A1 - Stalling, Detlev T1 - Volume Rendering on Irregular Grids (Abstract) T2 - Int. Workshop on Mathematics and Visualization Y1 - 1995 CY - Berlin, Germany ER - TY - JOUR A1 - Höllerer, Tobias A1 - Tönnies, Klaus A1 - Hege, Hans-Christian A1 - Stalling, Detlev T1 - Der Einfluß der Datenapproximation bei Volume Rendering durch ein Emissions/Absorptions-Modell JF - Visualisierung - Dynamik und Komplexität Y1 - 1995 PB - CEVIS Universität Bremen und Fachgruppe 4.2.1 der Gesellschaft für Informatik CY - Bremen, Germany ER - TY - CHAP A1 - Stalling, Detlev A1 - Hege, Hans-Christian T1 - Fast and Resolution-Independent Line Integral Convolution T2 - Proceedings of SIGGRAPH ’95 Y1 - 1995 U6 - https://doi.org/10.1145/218380.218448 SP - 249 EP - 256 PB - Computer Graphics Annual Conference Series, ACM SIGGRAPH CY - Los Angeles, California ER - TY - JOUR A1 - Seebaß, Martin A1 - Wust, Peter A1 - Gellermann, Johanna A1 - Stalling, Detlev A1 - Nadobny, Jacek A1 - Felix, Roland T1 - Dreidimensionale Simulation der nicht-invasiven Radiowellen-Hyperthermie JF - Minimal Invasive Medizin Y1 - 1995 VL - 6 IS - 1 SP - 29 EP - 35 ER - TY - CHAP A1 - Gellermann, Johanna A1 - Wust, Peter A1 - Stalling, Detlev A1 - Felix, Roland T1 - Optimisation Strategies in Hyperthermia Planning Compared with those Used in Radiotherapy Planning T2 - Proc. CAR 95 Computer Assisted Radiology Y1 - 1995 SP - 1083 EP - 1087 CY - Berlin ER - TY - CHAP A1 - Stalling, Detlev A1 - Hege, Hans-Christian A1 - Höllerer, Tobias T1 - Visualization and 3D-Interaction for Hyperthermia Treatment Planning T2 - Proc. CAR 95 Computer Assisted Radiology, 9th International Symposium and Exhibition Y1 - 1995 SP - 1216 EP - 1222 CY - Berlin ER - TY - JOUR A1 - Limbach, Daniel T1 - Parallel MPEG-Encoder for Real-Time Online Encoding JF - SuParCup95 Adward Contribution 2nd Student Price, Supercomputer Seminar Y1 - 1995 CY - Mannheim ER - TY - JOUR A1 - Hashimoto, T. A1 - Hege, Hans-Christian T1 - Monte Carlo Renormalization Study at Large beta in the Confinement Region JF - Nuclear Phys. B. Proc. Suppl. Y1 - 1993 U6 - https://doi.org/10.1016/0920-5632(93)90263-6 VL - 30 SP - 517 EP - 520 ER - TY - GEN A1 - Wunderling, Roland A1 - Hege, Hans-Christian T1 - AGIL - the Adaptable Graphical Interface Layer, Programmierer-Handbuch Y1 - 1992 SP - 34pp. PB - Interner Report, Konrad-Zuse-Zentrum für Informationstechnik Berlin (ZIB), Germany ER - TY - JOUR A1 - Hege, Hans-Christian A1 - Knecht, Renate T1 - Conference Report: Parallel Computing 91 JF - Parallel Computing Y1 - 1992 VL - 18 IS - 4 SP - 473 EP - 476 ER - TY - JOUR A1 - Hashimoto, T. A1 - Hege, Hans-Christian T1 - Hadron Spectroscopy on a 32^3 * 48 Lattice JF - Nucl. Phys. B Proc. Suppl. 26 Y1 - 1992 U6 - https://doi.org/10.1016/0920-5632(92)90257-S SP - 293 EP - 295 ER - TY - JOUR A1 - Akemi, K. A1 - Forcrand, Ph. de A1 - Fujisaki, M. A1 - Hashimoto, T. A1 - Hege, Hans-Christian A1 - Hioki, S. A1 - Makino, J. A1 - Miyamura, O. A1 - Nakamura, A. A1 - Okuda, M. A1 - Stamatescu, I. O. A1 - Tago, Yoshio A1 - Takaishi, T. T1 - SU(3) Renormalization Group Study on Parallel Computer AP 1000 JF - Nucl. Phys. B Proc. Suppl. 26 Y1 - 1992 U6 - https://doi.org/10.1016/0920-5632(92)90293-2 SP - 420 EP - 422 ER - TY - JOUR A1 - Akemi, K. A1 - Forcrand, Ph. de A1 - Fujisaki, M. A1 - Hashimoto, T. A1 - Hege, Hans-Christian A1 - Hioki, S. A1 - Makino, J. A1 - Miyamura, O. A1 - Nakamura, A. A1 - Okuda, M. A1 - Stamatescu, I. O. A1 - Tago, Yoshio A1 - Takaishi, T. T1 - QCD on the Highly Parallel Computer AP 1000 JF - Nucl. Phys. B Proc. Suppl. 26 Y1 - 1992 U6 - https://doi.org/10.1016/0920-5632(92)90358-Y SP - 644 EP - 646 ER - TY - CHAP A1 - Hege, Hans-Christian A1 - Stüben, Hinnerk T1 - Vectorization and Parallelization of Irregular Problems via Graph Coloring T2 - Proc. of the ACM Int. Conf. on Supercomputing Y1 - 1991 U6 - https://doi.org/10.1145/109025.109042 SP - 47 EP - 56 CY - Cologne ER - TY - THES A1 - Lange, Martin T1 - Shadow Volumes für dynamische Dreiecksnetze auf CPU und GPU Y1 - 2012 UR - http://www.zib.de/visual/publications/thesis/Lange-MA_2012.pdf ER - TY - THES A1 - Tenbusch, Tobias T1 - Rendering von Partikeleffekten in einem Deferred Renderer Y1 - 2012 UR - http://www.zib.de/visual/publications/thesis/Tenbusch-MA_2012.pdf ER - TY - THES A1 - Papazov, Chavdar T1 - Morphing zwischen triangulierten Nicht-Mannigfaltigkeiten unter Berücksichtigung topologischer Änderungen Y1 - 2007 ER - TY - THES A1 - Schudoma, Christian T1 - A Fragment Based Approach to RNA Threading Y1 - 2006 ER - TY - THES A1 - Beckmann, Philipp T1 - Consistent Cell-Decomposition of Homeomorphic Simplicial Surfaces Y1 - 2006 ER - TY - THES A1 - Clasen, Malte T1 - Beleuchtung von Landschaften in interaktiver Darstellung Y1 - 2005 ER - TY - GEN A1 - Wenckebach, Thomas T1 - Das Korrespondenzproblem für Statistische 3D-Formmodelle in biomedizinischen Anwendungen Y1 - 2004 ER - TY - THES A1 - Wenckebach, Thomas T1 - Volumetrische Registrierung zur medizinischen Bildanalyse Y1 - 2004 ER - TY - THES A1 - Schudoma, Christian T1 - Application of a Combined Sequence and Structure Alignment for RNA 3D Modeling Y1 - 2004 ER - TY - THES A1 - Baumeister, Timm T1 - Modellierung der freien Solvatisierungsenthalpie und Anwendung als Scoringfunktion Y1 - 2004 ER - TY - THES A1 - Benger, Werner T1 - Visualization of General Relativistic Tensor Fields via a Fiber Bundle Data Model Y1 - 2004 N1 - ISBN 3-86541-108-8 ER - TY - THES A1 - Adolfson, Jon A1 - Helgesson, Johan T1 - Generation of Smooth Non-Manifold Surfaces from Segmented Image Data Y1 - 2004 ER - TY - THES A1 - (née Zöckler), Malte T1 - Efficient Visualization and Reconstruction of 3D Geometric from Neuro-Biological Confocal Microscope Scans Y1 - 2003 ER - TY - THES A1 - Trepczynski, Adam T1 - Schnittmodellierung auf triangulierten Polygonoberflächen Y1 - 2002 ER - TY - THES A1 - Sander, Oliver T1 - Constructing Boundary and Interface Parametrizations for Finite Element Solvers Y1 - 2001 ER - TY - THES A1 - Zaharescu, Valentin-Florian T1 - Semi-automatic Volume Slices Alignment for 3D Reconstruction and Analysis Y1 - 2001 ER - TY - THES A1 - Coconu, Liviu T1 - Semi-automatic Segmentation of Bronchoscopic Images Y1 - 2001 ER - TY - THES A1 - Westerhoff, Natascha T1 - Geometrische Methoden zur 3D-Segmentierung Y1 - 1999 ER - TY - THES A1 - Preis, Philipp T1 - Sichtbarkeitsorientiertes Picking in Direct Volume Renderings mit Beleuchtungsmodellen Y1 - 2012 UR - http://www.zib.de/visual/publications/thesis/preis_MA.pdf ER - TY - THES A1 - Ruben, Karl T1 - Kugelpackungen in arbiträr geformten Volumina T1 - Sphere Packings in Arbitrarily Bounded Volumes Y1 - 2012 ER - TY - THES A1 - Gensel, Maria T1 - Visualisierungsmethoden zur Verdeutlichung der räumlichen Beziehungen zwischen linien- und flächenartigen Strukturen am Beispiel neurobiologischer Daten Y1 - 2009 ER - TY - THES A1 - Sahner, Jan T1 - Extraction of Vortex Structures in 3D Flow Fields Y1 - 2009 ER - TY - THES A1 - Wade, Moritz T1 - Automatic Textbook-Like Layout of Biological Networks Y1 - 2008 ER - TY - THES A1 - Weinkauf, Tino T1 - Extraction of Topological Structures in 2D and 3D Vector Fields Y1 - 2008 ER - TY - THES A1 - Schmidt-Ehrenberg, Johannes T1 - Analysis and Visualization of Molecular Conformations Y1 - 2008 ER - TY - THES A1 - Schuberth, Sebastian T1 - High-Performance Tomographic Reconstruction using OpenCL Y1 - 2011 ER - TY - THES A1 - Brenner, Thomas T1 - Volume Rendering - Ein Projektionsansatz für den Cray T3D Y1 - 1996 ER - TY - THES A1 - Battke, Henrik T1 - Entwicklung textur-basierter Verfahren zur Vektorfeldvisualisierung Y1 - 1996 ER - TY - THES A1 - Anders, Thomas T1 - Effiziente Algorihmen zur Isoflächengenerierung aus Volumendaten Y1 - 1996 ER - TY - THES A1 - Höllerer, Tobias T1 - Volume Rendering auf irregulären Gittern - Theorie und Implementierung Y1 - 1995 ER - TY - BOOK ED - Hege, Hans-Christian T1 - Visualization and Mathematics T3 - Book Series Y1 - 2010 PB - Springer-Verlag ER - TY - BOOK ED - Hege, Hans-Christian T1 - VideoMath T3 - Video Series Y1 - 2010 PB - Springer-Verlag ER - TY - GEN ED - Hege, Hans-Christian ED - Machiraju, Raghu ED - Laidlaw, David T1 - Volume Graphics and Point-Based Graphics Y1 - 2010 N1 - Collection of selected and extended papers of international IEEE/EG Symposia Volume Graphics and Point-Based Graphics 2008, Special Section in IEEE Trans. Vis. Comput. Graph., 16:4, pp. 529-608, 2010 ER - TY - BOOK ED - Hege, Hans-Christian ED - Hotz, Ingrid ED - Munzner, Tamara T1 - EuroVis 2009 Y1 - 2009 PB - Blackwell Publishing ER - TY - BOOK ED - Scheuermann, Gerik ED - Hege, Hans-Christian ED - Polthier, Konrad T1 - Topology-based Methods in Visualization II T3 - Mathematics and Visualization Y1 - 2009 SN - 978-3-540-88605-1 PB - Springer ER - TY - BOOK ED - Hege, Hans-Christian ED - Laidlaw, David ED - Pajarola, Renato ED - Staadt, Oliver T1 - Volume and Point-Based Graphics 2008 Y1 - 2008 SN - 978-3-905674-12-5 PB - Eurographics Association ER - TY - GEN A1 - Wiebel, Alexander A1 - Müller, Cornelius A1 - Garth, Christoph A1 - Knösche, Thomas ED - Westin, Carl-Frederic ED - Burgeth, Bernhard ED - Vilanova, Anna T1 - A System for Combined Visualization of EEG and Diffusion Tensor Imaging Tractography Data T2 - Visualization and Processing of Tensors and Higher-Order Descriptors for Multi-field Data Y1 - 2014 SP - 325 EP - 337 PB - Springer ER - TY - GEN A1 - Homberg, Ulrike A1 - Baum, Daniel A1 - Wiebel, Alexander A1 - Prohaska, Steffen A1 - Hege, Hans-Christian T1 - Definition, Extraction, and Validation of Pore Structures in Porous Materials N2 - An intuitive and sparse representation of the void space of porous materials supports the efficient analysis and visualization of interesting qualitative and quantitative parameters of such materials. We introduce definitions of the elements of this void space, here called pore space, based on its distance function, and present methods to extract these elements using the extremal structures of the distance function. The presented methods are implemented by an image processing pipeline that determines pore centers, pore paths and pore constrictions. These pore space elements build a graph that represents the topology of the pore space in a compact way. The representations we derive from μCT image data of realistic soil specimens enable the computation of many statistical parameters and, thus, provide a basis for further visual analysis and application-specific developments. We introduced parts of our pipeline in previous work. In this chapter, we present additional details and compare our results with the analytic computation of the pore space elements for a sphere packing in order to show the correctness of our graph computation. T3 - ZIB-Report - 13-56 Y1 - 2013 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:0297-zib-42510 SN - 1438-0064 ER - TY - GEN A1 - Dercksen, Vincent J. A1 - Hege, Hans-Christian A1 - Oberlaender, Marcel T1 - The Filament Editor: An Interactive Software Environment for Visualization, Proof-Editing and Analysis of 3D Neuron Morphology N2 - Neuroanatomical analysis, such as classification of cell types, depends on reliable reconstruction of large numbers of complete 3D dendrite and axon morphologies. At present, the majority of neuron reconstructions are obtained from preparations in a single tissue slice in vitro, thus suffering from cut off dendrites and, more dramatically, cut off axons. In general, axons can innervate volumes of several cubic millimeters and may reach path lengths of tens of centimeters. Thus, their complete reconstruction requires in vivo labeling, histological sectioning and imaging of large fields of view. Unfortunately, anisotropic background conditions across such large tissue volumes, as well as faintly labeled thin neurites, result in incomplete or erroneous automated tracings and even lead experts to make annotation errors during manual reconstructions. Consequently, tracing reliability renders the major bottleneck for reconstructing complete 3D neuron morphologies. Here, we present a novel set of tools, integrated into a software environment named ‘Filament Editor’, for creating reliable neuron tracings from sparsely labeled in vivo datasets. The Filament Editor allows for simultaneous visualization of complex neuronal tracings and image data in a 3D viewer, proof-editing of neuronal tracings, alignment and interconnection across sections, and morphometric analysis in relation to 3D anatomical reference structures. We illustrate the functionality of the Filament Editor on the example of in vivo labeled axons and demonstrate that for the exemplary dataset the final tracing results after proof-editing are independent of the expertise of the human operator. T3 - ZIB-Report - 13-75 Y1 - 2013 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:0297-zib-43157 SN - 1438-0064 ER - TY - JOUR A1 - Dercksen, Vincent J. A1 - Hege, Hans-Christian A1 - Oberlaender, Marcel T1 - The Filament Editor: An Interactive Software Environment for Visualization, Proof-Editing and Analysis of 3D Neuron Morphology JF - NeuroInformatics Y1 - 2014 U6 - https://doi.org/10.1007/s12021-013-9213-2 VL - 12 IS - 2 SP - 325 EP - 339 PB - Springer US ER - TY - CHAP A1 - Hlawitschka, Mario A1 - Hotz, Ingrid A1 - Kratz, Andrea A1 - Marai, G. Elisabeta A1 - Moreno, Rodrigo A1 - Scheuermann, Gerik A1 - Stommel, Markus A1 - Wiebel, Alexander A1 - Zhang, Eugene ED - Westin, Carl-Frederic ED - Burgeth, Bernhard ED - Vilanova, Anna T1 - Top Challenges in the Visualization of Engineering Tensor Fields T2 - Visualization and Processing of Tensors and Higher-Order Descriptors for Multi-Field Data Y1 - 2014 SP - 3 EP - 15 PB - Springer ER - TY - JOUR A1 - Hoch, Hannelore A1 - Wessel, Andreas A1 - Asche, Manfred A1 - Baum, Daniel A1 - Beckmann, Felix A1 - Bräunig, Peter A1 - Ehrig, Karsten A1 - Mühlethaler, Roland A1 - Riesemeier, Heinrich A1 - Staude, Andreas A1 - Stelbrink, Björn A1 - Wachmann, Ekkehard A1 - Weintraub, Phyllis A1 - Wipfler, Benjamin A1 - Wolff, Carsten A1 - Zilch, Mathias T1 - Non-Sexual Abdominal Appendages in Adult Insects Challenge a 300 Million Year Old Bauplan JF - Current Biology Y1 - 2014 U6 - https://doi.org/10.1016/j.cub.2013.11.040 VL - 24 IS - 1 SP - R16 EP - R17 ER - TY - JOUR A1 - Borong, Shao A1 - Cannistraci, Carlo A1 - Conrad, Tim T1 - Epithelial Mesenchymal Transition Network-based Feature Engineering in Lung Adenocarcinoma Prognosis Prediction Using Multiple Omic Data JF - Genomics and Computational Biology N2 - Epithelial mesenchymal transition (EMT) process has been shown as highly relevant to cancer prognosis. However, although different biological network-based biomarker identification methods have been proposed to predict cancer prognosis, EMT network has not been directly used for this purpose. In this study, we constructed an EMT regulatory network consisting of 87 molecules and tried to select features that are useful for prognosis prediction in Lung Adenocarcinoma (LUAD). To incorporate multiple molecular profiles, we obtained four types of molecular data including mRNA-Seq, copy number alteration (CNA), DNA methylation, and miRNA-Seq data from The Cancer Genome Atlas. The data were mapped to the EMT network in three alternative ways: mRNA-Seq and miRNA-Seq, DNA methylation, and CNA and miRNA-Seq. Each mapping was employed to extract five different sets of features using discretization and network-based biomarker identification methods. Each feature set was then used to predict prognosis with SVM and logistic regression classifiers. We measured the prediction accuracy with AUC and AUPR values using 10 times 10-fold cross validation. For a more comprehensive evaluation, we also measured the prediction accuracies of clinical features, EMT plus clinical features, randomly picked 87 molecules from each data mapping, and using all molecules from each data type. Counter-intuitively, EMT features do not always outperform randomly selected features and the prediction accuracies of the five feature sets are mostly not significantly different. Clinical features are shown to give the highest prediction accuracies. In addition, the prediction accuracies of both EMT features and random features are comparable as using all features (more than 17,000) from each data type. Y1 - 2017 U6 - https://doi.org/http://dx.doi.org/10.18547/gcb.2017.vol3.iss3.e57 VL - 3 IS - 3 SP - 1 EP - 13 ER - TY - JOUR A1 - Lindow, Norbert A1 - Baum, Daniel A1 - Leborgne, Morgan A1 - Hege, Hans-Christian T1 - Interactive Visualization of RNA and DNA Structures JF - IEEE Transactions on Visualization and Computer Graphics N2 - The analysis and visualization of nucleic acids (RNA and DNA) is playing an increasingly important role due to their fundamental importance for all forms of life and the growing number of known 3D structures of such molecules. The great complexity of these structures, in particular, those of RNA, demands interactive visualization to get deeper insights into the relationship between the 2D secondary structure motifs and their 3D tertiary structures. Over the last decades, a lot of research in molecular visualization has focused on the visual exploration of protein structures while nucleic acids have only been marginally addressed. In contrast to proteins, which are composed of amino acids, the ingredients of nucleic acids are nucleotides. They form structuring patterns that differ from those of proteins and, hence, also require different visualization and exploration techniques. In order to support interactive exploration of nucleic acids, the computation of secondary structure motifs as well as their visualization in 2D and 3D must be fast. Therefore, in this paper, we focus on the performance of both the computation and visualization of nucleic acid structure. We present a ray casting-based visualization of RNA and DNA secondary and tertiary structures, which enables for the first time real-time visualization of even large molecular dynamics trajectories. Furthermore, we provide a detailed description of all important aspects to visualize nucleic acid secondary and tertiary structures. With this, we close an important gap in molecular visualization. Y1 - 2019 U6 - https://doi.org/10.1109/TVCG.2018.2864507 VL - 25 IS - 1 SP - 967 EP - 976 ER - TY - JOUR A1 - Agudo Jácome, Leonardo A1 - Hege, Hans-Christian A1 - Paetsch, Olaf A1 - Pöthkow, Kai T1 - Three-dimensional reconstruction and quantification of dislocation substructures from transmission electron microscopy stereo pairs JF - Ultramicroscopy N2 - A great amount of material properties is strongly influenced by dislocations, the carriers of plastic deformation. It is therefore paramount to have appropriate tools to quantify dislocation substructures with regard to their features, e.g., dislocation density, Burgers vectors or line direction. While the transmission electron microscope (TEM) has been the most widely-used equipment implemented to investigate dislocations, it usually is limited to the two-dimensional (2D) observation of three-dimensional (3D) structures. We reconstruct, visualize and quantify 3D dislocation substructure models from only two TEM images (stereo pairs) and assess the results. The reconstruction is based on the manual interactive tracing of filiform objects on both images of the stereo pair. The reconstruction and quantification method are demonstrated on dark field (DF) scanning (S)TEM micrographs of dislocation substructures imaged under diffraction contrast conditions. For this purpose, thick regions (>300 nm) of TEM foils are analyzed, which are extracted from a Ni-base superalloy single crystal after high temperature creep deformation. It is shown how the method allows 3D quantification from stereo pairs in a wide range of tilt conditions, achieving line length and orientation uncertainties of 3% and 7°, respectively. Parameters that affect the quality of such reconstructions are discussed. Y1 - 2018 U6 - https://doi.org/10.1016/j.ultramic.2018.08.015 VL - 195 SP - 157 EP - 170 ER - TY - GEN A1 - Agudo Jácome, Leonardo A1 - Hege, Hans-Christian A1 - Paetsch, Olaf A1 - Pöthkow, Kai T1 - Three-Dimensional Reconstruction and Quantification of Dislocation Substructures from Transmission Electron Microscopy Stereo-Pairs N2 - A great amount of material properties is strongly influenced by dislocations, the carriers of plastic deformation. It is therefore paramount to have appropriate tools to quantify dislocation substructures with regard to their features, e.g., dislocation density, Burgers vectors or line direction. While the transmission electron microscope (TEM) has been the most widely-used equipment implemented to investigate dislocations, it usually is limited to the two-dimensional (2D) observation of three-dimensional (3D) structures. We reconstruct, visualize and quantify 3D dislocation substructure models from only two TEM images (stereo-pairs) and assess the results. The reconstruction is based on the manual interactive tracing of filiform objects on both images of the stereo-pair. The reconstruction and quantification method are demonstrated on dark field (DF) scanning (S)TEM micrographs of dislocation substructures imaged under diffraction contrast conditions. For this purpose, thick regions (> 300 nm) of TEM foils are analyzed, which are extracted from a Ni-base superalloy single crystal after high temperature creep deformation. It is shown how the method allows 3D quantification from stereo-pairs in a wide range of tilt conditions, achieving line length and orientation uncertainties of 3 % and 7°, respectively. Parameters that affect the quality of such reconstructions are discussed. T3 - ZIB-Report - 18-50 KW - dislocation, diffraction contrast, scanning transmission electron microscopy, stereoscopy, visualization Y1 - 2018 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:0297-zib-70339 SN - 1438-0064 ER - TY - CHAP A1 - Coconu, Liviu A1 - Ullmer, Brygg A1 - Paar, Philip A1 - Liu, Jing A1 - Konkel, Miriam A1 - Hege, Hans-Christian T1 - A smartphone-based tangible interaction approach for landscape visualization. T2 - PerDis ’18 Proceedings of the 7th ACM International Symposium on Pervasive Displays, Munich, Germany, June 6-8, 2018 N2 - The use of tangible interfaces for navigation of landscape scenery – for example, lost places re-created in 3D – has been pursued and articulated as a promising, impactful application of interactive visualization. In this demonstration, we present a modern, low-cost implementation of a previously-realized multimodal gallery installation. Our demonstration centers upon the versatile usage of a smartphone for sensing, navigating, and (optionally) displaying element on a physical surface in tandem with a larger, more immersive display. Y1 - 2018 U6 - https://doi.org/10.1145/3205873.3210707 SP - no. 23 PB - ACM CY - New York, NY, USA ER - TY - CHAP A1 - Ullmer, Brygg A1 - Paar, Philip A1 - Coconu, Liviu A1 - Liu, Jing A1 - Konkel, Miriam A1 - Hege, Hans-Christian T1 - An 1834 mediterranean garden in Berlin – engaged from 2004, 2018, 2032, and 2202 T2 - PerDis ’18 – 7th ACM International Symposium on Pervasive Displays, Munich, Germany, June 6-8, 2018 N2 - In 2004, a team of researchers realized a semi-immersive interactive gallery installation, visualizing an 1834 Mediterranean garden, introduced as “italienisches Kunststück” (Italian legerdemain) by Peter Joseph Lenné. The park was originally realized on the grounds of Schloss Sanssouci in Potsdam, Germany. The installation centered on highly detailed renderings of hundreds of plants projected upon a panoramic display. Interactivity was expressed with a tangible interface which (while presently dated) we believe remains without near-precedent then or since. We present the installation (experienced by roughly 20,000 visitors), focusing on the interaction aspects. We introduce new book and table/door-format mockups. Drawing upon a heuristic of the scientist-philosopher Freeman Dyson, we consider grounded future prospect variations in the contexts of 2018, 2032, and 2202. We see this exercise as prospectively generalizing to a variety of similar and widely diverse application domains. Y1 - 2018 U6 - https://doi.org/10.1145/3205873.3205894 SP - no. 12 PB - ACM CY - New York, NY, USA ER - TY - JOUR A1 - Baum, Daniel A1 - Lindow, Norbert A1 - Hege, Hans-Christian A1 - Lepper, Verena A1 - Siopi, Tzulia A1 - Kutz, Frank A1 - Mahlow, Kristin A1 - Mahnke, Heinz-Eberhard T1 - Revealing hidden text in rolled and folded papyri JF - Applied Physics A N2 - Ancient Egyptian papyri are often folded, rolled up or kept as small packages, sometimes even sealed. Physically unrolling or unfolding these packages might severely damage them. We demonstrate a way to get access to the hidden script without physical unfolding by employing computed tomography and mathematical algorithms for virtual unrolling and unfolding. Our algorithmic approaches are combined with manual interaction. This provides the necessary flexibility to enable the unfolding of even complicated and partly damaged papyrus packages. In addition, it allows us to cope with challenges posed by the structure of ancient papyrus, which is rather irregular, compared to other writing substrates like metallic foils or parchment. Unfolding of packages is done in two stages. In the first stage, we virtually invert the physical folding process step by step until the partially unfolded package is topologically equivalent to a scroll or a papyrus sheet folded only along one fold line. To minimize distortions at this stage, we apply the method of moving least squares. In the second stage, the papyrus is simply flattened, which requires the definition of a medial surface. We have applied our software framework to several papyri. In this work, we present the results of applying our approaches to mockup papyri that were either rolled or folded along perpendicular fold lines. In the case of the folded papyrus, our approach represents the first attempt to address the unfolding of such complicated folds. Y1 - 2017 U6 - https://doi.org/10.1007/s00339-017-0808-6 VL - 123 IS - 3 SP - 171 ER - TY - CHAP A1 - Ritter, Zully A1 - Prohaska, Steffen A1 - Brand, R. A1 - Friedmann, A. A1 - Hege, Hans-Christian A1 - Goebbels, Jürgen A1 - Felsenberg, Dieter T1 - Osteocytes number and volume in osteoporotic and in healthy bone biopsies analysed using Synchrotron CT: a pilot study T2 - Proc. ISB 2011 Y1 - 2011 ER - TY - THES A1 - Krabi, Marianne T1 - Implementierung einer Methode zur automatischen Erkennung von Nervenzellkörpern in 3D Mikroskopbildern Y1 - 2011 ER - TY - JOUR A1 - Oeltze, Steffen A1 - Lehmann, Dirk J. A1 - Kuhn, Alexander A1 - Janiga, Gábor A1 - Theisel, Holger A1 - Preim, Bernhard T1 - Blood Flow Clustering and Applications in Virtual Stenting of Intracranial Aneurysms JF - IEEE Transactions on Visualization and Computer Graphics, 2014 Y1 - 2013 U6 - https://doi.org/10.1109/TVCG.2013.2297914 SN - 0934-5892 VL - 20 IS - 5 SP - 686 EP - 701 ER - TY - JOUR A1 - Kainmüller, Dagmar A1 - Lamecker, Hans A1 - Heller, Markus O. A1 - Weber, Britta A1 - Hege, Hans-Christian A1 - Zachow, Stefan T1 - Omnidirectional Displacements for Deformable Surfaces JF - Medical Image Analysis Y1 - 2013 U6 - https://doi.org/10.1016/j.media.2012.11.006 VL - 17 IS - 4 SP - 429 EP - 441 PB - Elsevier ER - TY - CHAP A1 - Kasten, Jens A1 - Zoufahl, Andre A1 - Hege, Hans-Christian A1 - Hotz, Ingrid T1 - Analysis of Vortex Merge Graphs T2 - VMV 2012: Vision, Modeling and Visualization Y1 - 2012 U6 - https://doi.org/10.2312/PE/VMV/VMV12/111-118 SP - 111 EP - 118 PB - Eurographics Association ER - TY - CHAP A1 - Kasten, Jens A1 - Hotz, Ingrid A1 - Noack, Bernd A1 - Hege, Hans-Christian T1 - Vortex Merge Graphs in Two-dimensional Unsteady Flow Fields T2 - EuroVis – Short Papers Y1 - 2012 UR - http://diglib.eg.org/EG/DL/PE/EuroVisShort/EuroVisShort2012/001-005.pdf U6 - https://doi.org/10.2312/PE/EuroVisShort/EuroVisShort2012/001-005 SP - 1 EP - 5 PB - Eurographics Association CY - Vienna, Austria ER - TY - JOUR A1 - Krone, Michael A1 - Kozlíková, Barbora A1 - Lindow, Norbert A1 - Baaden, Marc A1 - Baum, Daniel A1 - Parulek, Julius A1 - Hege, Hans-Christian A1 - Viola, Ivan T1 - Visual Analysis of Biomolecular Cavities: State of the Art JF - Computer Graphics Forum N2 - In this report we review and structure the branch of molecular visualization that is concerned with the visual analysis of cavities in macromolecular protein structures. First the necessary background, the domain terminology, and the goals of analytical reasoning are introduced. Based on a comprehensive collection of relevant research works, we present a novel classification for cavity detection approaches and structure them into four distinct classes: grid-based, Voronoi-based, surface-based, and probe-based methods. The subclasses are then formed by their combinations. We match these approaches with corresponding visualization technologies starting with direct 3D visualization, followed with non-spatial visualization techniques that for example abstract the interactions between structures into a relational graph, straighten the cavity of interest to see its profile in one view, or aggregate the time sequence into a single contour plot. We also discuss the current state of methods for the visual analysis of cavities in dynamic data such as molecular dynamics simulations. Finally, we give an overview of the most common tools that are actively developed and used in the structural biology and biochemistry research. Our report is concluded by an outlook on future challenges in the field. Y1 - 2016 U6 - https://doi.org/10.1111/cgf.12928 SN - 1467-8659 VL - 35 IS - 3 SP - 527 EP - 551 ER - TY - THES A1 - Krenz, Konstantin T1 - How likely is it that one’s standing on a ridge? Probabilistic Ridges in Gaussian Random Fields N2 - A method is developed for computing the local probability for the presence of a ridge in a Gaussian Random field. KW - Uncertainty quantification, Gaussian random fields, ridge, feature detection Y1 - 2016 ER - TY - GEN A1 - Nava-Yazdani, Esfandiar A1 - Hege, Hans-Christian A1 - von Tycowicz, Christoph A1 - Sullivan, T. J. T1 - A Shape Trajectories Approach to Longitudinal Statistical Analysis N2 - For Kendall’s shape space we determine analytically Jacobi fields and parallel transport, and compute geodesic regression. Using the derived expressions, we can fully leverage the geometry via Riemannian optimization and reduce the computational expense by several orders of magnitude. The methodology is demonstrated by performing a longitudinal statistical analysis of epidemiological shape data. As application example we have chosen 3D shapes of knee bones, reconstructed from image data of the Osteoarthritis Initiative. Comparing subject groups with incident and developing osteoarthritis versus normal controls, we find clear differences in the temporal development of femur shapes. This paves the way for early prediction of incident knee osteoarthritis, using geometry data only. T3 - ZIB-Report - 18-42 KW - shape space, shape trajectories, geodesic regression, longitudinal analysis, osteoarthritis Y1 - 2018 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:0297-zib-69759 SN - 1438-0064 ER - TY - GEN A1 - Lindow, Norbert A1 - Baum, Daniel A1 - Hege, Hans-Christian T1 - Atomic Accessibility Radii for Molecular Dynamics Analysis N2 - In molecular structure analysis and visualization, the molecule’s atoms are often modeled as hard spheres parametrized by their positions and radii. While the atom positions result from experiments or molecular simulations, for the radii typically values are taken from literature. Most often, van der Waals (vdW) radii are used, for which diverse values exist. As a consequence, different visualization and analysis tools use different atomic radii, and the analyses are less objective than often believed. Furthermore, for the geometric accessibility analysis of molecular structures, vdW radii are not well suited. The reason is that during the molecular dynamics simulation, depending on the force field and the kinetic energy in the system, non-bonded atoms can come so close to each other that their vdW spheres intersect. In this paper, we introduce a new kind of atomic radius, called atomic accessibility radius’, that better characterizes the accessibility of an atom in a given molecular trajectory. The new radii reflect the movement possibilities of atoms in the simulated physical system. They are computed by solving a linear program that maximizes the radii of the atoms under the constraint that non-bonded spheres do not intersect in the considered molecular trajectory. Using this data-driven approach, the actual accessibility of atoms can be visualized more precisely. T3 - ZIB-Report - 18-18 KW - molecular dynamics KW - atomic radii KW - cavity analysis Y1 - 2018 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:0297-zib-68468 SN - 1438-0064 ER - TY - GEN A1 - Papazov, Chavdar A1 - Hege, Hans-Christian T1 - Blue-noise Optimized Point Sets Based on Procrustes Analysis N2 - In this paper, we propose a new method for optimizing the blue noise characteristics of point sets. It is based on Procrustes analysis, a technique for adjusting shapes to each other by applying optimal elements of an appropriate transformation group. We adapt this technique to the problem at hand and introduce a very simple, efficient and provably convergent point set optimizer. T3 - ZIB-Report - 17-55 KW - blue-noise KW - point set optimization KW - triangulation KW - Procrustes analysis Y1 - 2017 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:0297-zib-65356 SN - 1438-0064 ER - TY - JOUR A1 - Banyassady, Bahareh A1 - Chiu, Man-Kwun A1 - Korman, Matias A1 - Mulzer, Wolfgang A1 - van Renssen, André A1 - Roeloffzen, Marcel A1 - Seiferth, Paul A1 - Stein, Yannik A1 - Vogtenhuber, Birgit A1 - Willert, Max T1 - Routing in polygonal domains JF - Computational Geometry, Theory and Applications N2 - We consider the problem of routing a data packet through the visibility graph of a polygonal domain P with n vertices and h holes. We may preprocess P to obtain a "label" and a "routing table" for each vertex of P. Then, we must be able to route a data packet between any two vertices p and q of P, where each step must use only the label of the target node q and the routing table of the current node. For any fixed epsilon > 0, we present a routing scheme that always achieves a routing path whose length exceeds the shortest path by a factor of at most 1 + epsilon. The labels have O(log n) bits, and the routing tables are of size O(((epsilon^-1)+h)log n). The preprocessing time is O((n^2)log n). It can be improved to O(n^2) for simple polygons. Y1 - 2019 U6 - https://doi.org/10.1016/j.comgeo.2019.101593 VL - 87 PB - Elsevier ER - TY - JOUR A1 - Banyassady, Bahareh A1 - Barba, Luis A1 - Mulzer, Wolfgang T1 - Time-Space Trade-Offs for Computing Euclidean Minimum Spanning Trees JF - Journal of Computational Geometry (JoCG) N2 - We present time-space trade-offs for computing the Euclidean minimum spanning tree of a set S of n point-sites in the plane. More precisely, we assume that S resides in a random-access memory that can only be read. The edges of the Euclidean minimum spanning tree EMST(S) have to be reported sequentially, and they cannot be accessed or modified afterwards. There is a parameter s in {1, ..., n} so that the algorithm may use O(s) cells of read-write memory (called the workspace) for its computations. Our goal is to find an algorithm that has the best possible running time for any given s between 1 and n. We show how to compute EMST(S) in O(((n^3)/(s^2)) log s) time with O(s) cells of workspace, giving a smooth trade-off between the two best-known bounds O(n^3) for s = 1 and O(n log n) for s = n. For this, we run Kruskal's algorithm on the "relative neighborhood graph" (RNG) of S. It is a classic fact that the minimum spanning tree of RNG(S) is exactly EMST(S). To implement Kruskal's algorithm with O(s) cells of workspace, we define s-nets, a compact representation of planar graphs. This allows us to efficiently maintain and update the components of the current minimum spanning forest as the edges are being inserted. Y1 - 2020 U6 - http://nbn-resolving.de/urn/resolver.pl?https://jocg.org/index.php/jocg/article/view/473 VL - 11(1) SP - 525 EP - 547 ER - TY - CHAP A1 - Papazov, Chavdar A1 - Hege, Hans-Christian T1 - Blue-noise Optimized Point Sets Based on Procrustes Analysis T2 - SIGGRAPH Asia 2017 Technical Briefs Y1 - 2017 U6 - https://doi.org/10.1145/3145749.3149442 SP - 20:1 EP - 20:4 ER - TY - JOUR A1 - Oeltze-Jaffra, Steffen A1 - Meuschke, Monique A1 - Neugebauer, Mathias A1 - Saalfeld, Sylvia A1 - Lawonn, Kai A1 - Janiga, Gabor A1 - Hege, Hans-Christian A1 - Zachow, Stefan A1 - Preim, Bernhard T1 - Generation and Visual Exploration of Medical Flow Data: Survey, Research Trends, and Future Challenges JF - Computer Graphics Forum N2 - Simulations and measurements of blood and air flow inside the human circulatory and respiratory system play an increasingly important role in personalized medicine for prevention, diagnosis, and treatment of diseases. This survey focuses on three main application areas. (1) Computational Fluid Dynamics (CFD) simulations of blood flow in cerebral aneurysms assist in predicting the outcome of this pathologic process and of therapeutic interventions. (2) CFD simulations of nasal airflow allow for investigating the effects of obstructions and deformities and provide therapy decision support. (3) 4D Phase-Contrast (4D PC) Magnetic Resonance Imaging (MRI) of aortic hemodynamics supports the diagnosis of various vascular and valve pathologies as well as their treatment. An investigation of the complex and often dynamic simulation and measurement data requires the coupling of sophisticated visualization, interaction, and data analysis techniques. In this paper, we survey the large body of work that has been conducted within this realm. We extend previous surveys by incorporating nasal airflow, addressing the joint investigation of blood flow and vessel wall properties, and providing a more fine-granular taxonomy of the existing techniques. From the survey, we extract major research trends and identify open problems and future challenges. The survey is intended for researchers interested in medical flow but also more general, in the combined visualization of physiology and anatomy, the extraction of features from flow field data and feature-based visualization, the visual comparison of different simulation results, and the interactive visual analysis of the flow field and derived characteristics. Y1 - 2019 U6 - https://doi.org/10.1111/cgf.13394 VL - 38 IS - 1 SP - 87 EP - 125 PB - Wiley ER - TY - JOUR A1 - Kramer, Tobias A1 - Noack, Matthias A1 - Baum, Daniel A1 - Hege, Hans-Christian A1 - Heller, Eric J. T1 - Dust and gas emission from cometary nuclei: the case of comet 67P/Churyumov-Gerasimenko JF - Advances in Physics: X N2 - Comets display with decreasing solar distance an increased emission of gas and dust particles, leading to the formation of the coma and tail. Spacecraft missions provide insight in the temporal and spatial variations of the dust and gas sources located on the cometary nucleus. For the case of comet 67P/Churyumov-Gerasimenko (67P/C-G), the long-term obser- vations from the Rosetta mission point to a homogeneous dust emission across the entire illuminated surface. Despite the homogeneous initial dis- tribution, a collimation in jet-like structures becomes visible. We propose that this observation is linked directly to the complex shape of the nucleus and projects concave topographical features into the dust coma. To test this hypothesis, we put forward a gas-dust description of 67P/C-G, where gravitational and gas forces are accurately determined from the surface mesh and the rotation of the nucleus is fully incorporated. The emerging jet-like structures persist for a wide range of gas-dust interactions and show a dust velocity dependent bending. Y1 - 2018 U6 - https://doi.org/10.1080/23746149.2017.1404436 VL - 3 IS - 1 SP - 1404436 ER - TY - CHAP A1 - Sakurai, Daisuke A1 - Hege, Hans-Christian A1 - Kuhn, Alexander A1 - Rust, Henning A1 - Kern, Bastian A1 - Breitkopf, Tom-Lukas T1 - An Application-Oriented Framework for Feature Tracking in Atmospheric Sciences T2 - Proceedings of 2017 IEEE 7th Symposium on Large Data Analysis and Visualization (LDAV) N2 - In atmospheric sciences, sizes of data sets grow continuously due to increasing resolutions. A central task is the comparison of spatiotemporal fields, to assess different simulations and to compare simulations with observations. A significant information reduction is possible by focusing on geometric-topological features of the fields or on derived meteorological objects. Due to the huge size of the data sets, spatial features have to be extracted in time slices and traced over time. Fields with chaotic component, i.e. without 1:1 spatiotemporal correspondences, can be compared by looking upon statistics of feature properties. Feature extraction, however, requires a clear mathematical definition of the features - which many meteorological objects still lack. Traditionally, object extractions are often heuristic, defined only by implemented algorithms, and thus are not comparable. This work surveys our framework designed for efficient development of feature tracking methods and for testing new feature definitions. The framework supports well-established visualization practices and is being used by atmospheric researchers to diagnose and compare data. Y1 - 2017 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:0297-zib-66685 SP - 96 EP - 97 ER - TY - JOUR A1 - Willie, Bettina M. A1 - Pap, Thomas A1 - Perka, Carsten A1 - Schmidt, Carsten Oliver A1 - Eckstein, Felix A1 - Arampatzis, Adamantios A1 - Hege, Hans-Christian A1 - Madry, Henning A1 - Vortkamp, Andrea A1 - Duda, Georg T1 - OVERLOAD of joints and its role in osteoarthritis - Towards understanding and preventing progression of primary osteoarthritis JF - Zeitschrift für Rheumatologie N2 - Intact joints are necessary for skeletal function and mobility in daily life. A healthy musculoskeletal system is the basis for a functional cardiovascular system as well as an intact immune system. Locomotion, physiotherapy, and various forms of patient activity are essential clinical therapies used in the treatment of neurodegeneration, stroke, diabetes, and cancer. Mobility is substantially impaired with degeneration of joints and, in advanced stages, nighttime pain and sleep disturbance are particularly cumbersome. Osteoarthritis (OA) is also known as degenerative joint disease. OA involves structural and compositional changes in the articular cartilage, as well as in the calcified cartilage, subchondral cortical bone, subchondral cancellous bone, meniscus, joint capsular tissue, and synovium; which eventually lead to degeneration of these tissues comprising synovial joints. Y1 - 2015 U6 - https://doi.org/10.1007/s00393-014-1561-2 VL - 76 IS - Suppl. 1 SP - 1 EP - 4 ER - TY - JOUR A1 - Günther, Tobias A1 - Kuhn, Alexander A1 - Hege, Hans-Christian A1 - Gross, Markus A1 - Theisel, Holger T1 - Progressive Monte Carlo rendering of atmospheric flow features across scales JF - Physical Review Fluids N2 - To improve existing weather prediction and reanalysis capabilities, high-resolution and multi-modal climate data becomes an increasingly important topic. The advent of increasingly dense numerical simulation of atmospheric phenomena, provides new means to better understand dynamic processes and to visualize structural flow patterns that remain hidden otherwise. In the presented illustrations we demonstrate an advanced technique to visualize multiple scales of dense flow fields and Lagrangian patterns therein, simulated by state-of-the-art simulation models for each scale. They provide a deeper insight into the structural differences and patterns that occur on each scale and highlight the complexity of flow phenomena in our atmosphere. This paper is associated with a poster winner of a 2016 APS/DFD Milton van Dyke Award for work presented at the DFD Gallery of Fluid Motion. The original poster is available from the Gallery of Fluid Motion, https://doi.org/10.1103/APS.DFD.2016.GFM.P0030 Y1 - 2017 U6 - https://doi.org/10.1103/PhysRevFluids.2.090502 VL - 2 SP - 09050-1 EP - 09050-3 ER - TY - JOUR A1 - Mahnke, Heinz-Eberhard A1 - Arlt, Tobias A1 - Baum, Daniel A1 - Hege, Hans-Christian A1 - Herter, Felix A1 - Lindow, Norbert A1 - Manke, Ingo A1 - Siopi, Tzulia A1 - Menei, Eve A1 - Etienne, Marc A1 - Lepper, Verena T1 - Virtual unfolding of folded papyri JF - Journal of Cultural Heritage N2 - The historical importance of ancient manuscripts is unique since they provide information about the heritage of ancient cultures. Often texts are hidden in rolled or folded documents. Due to recent impro- vements in sensitivity and resolution, spectacular disclosures of rolled hidden texts were possible by X-ray tomography. However, revealing text on folded manuscripts is even more challenging. Manual unfolding is often too risky in view of the fragile condition of fragments, as it can lead to the total loss of the document. X-ray tomography allows for virtual unfolding and enables non-destructive access to hid- den texts. We have recently demonstrated the procedure and tested unfolding algorithms on a mockup sample. Here, we present results on unfolding ancient papyrus packages from the papyrus collection of the Musée du Louvre, among them objects folded along approximately orthogonal folding lines. In one of the packages, the first identification of a word was achieved, the Coptic word for “Lord”. Y1 - 2020 U6 - https://doi.org/10.1016/j.culher.2019.07.007 VL - 41 SP - 264 EP - 269 PB - Elsevier ER - TY - CHAP A1 - Fröhler, Bernhard A1 - da Cunha Melo, Lucas A1 - Weissenböck, Johannes A1 - Kastner, Johann A1 - Möller, Torsten A1 - Hege, Hans-Christian A1 - Gröller, Eduard M. A1 - Sanctorum, Jonathan A1 - De Beenhouwer, Jan A1 - Sijbers, Jan A1 - Heinzl, Christoph T1 - Tools for the analysis of datasets from X-ray computed tomography based on Talbot-Lau grating interferometry T2 - Proceedings of iCT 2019, (9th Conference on Industrial Computed Tomography, Padova, Italy – iCT 2019, February 13-15, 2019) N2 - This work introduces methods for analyzing the three imaging modalities delivered by Talbot-Lau grating interferometry X-ray computed tomography (TLGI-XCT). The first problem we address is providing a quick way to show a fusion of all three modal- ities. For this purpose the tri-modal transfer function widget is introduced. The widget controls a mixing function that uses the output of the transfer functions of all three modalities, allowing the user to create one customized fused image. A second problem prevalent in processing TLGI-XCT data is a lack of tools for analyzing the segmentation process of such multimodal data. We address this by providing methods for computing three types of uncertainty: From probabilistic segmentation algorithms, from the voxel neighborhoods as well as from a collection of results. We furthermore introduce a linked views interface to explore this data. The techniques are evaluated on a TLGI-XCT scan of a carbon-fiber reinforced dataset with impact damage. We show that the transfer function widget accelerates and facilitates the exploration of this dataset, while the uncertainty analysis methods give insights into how to tweak and improve segmentation algorithms for more suitable results. Y1 - 2019 N1 - PDF | open access: https://www.ndt.net/article/ctc2019/papers/iCT2019_Full_paper_52.pdf IS - paper 52 ER - TY - JOUR A1 - Goubergrits, Leonid A1 - Hellmeier, Florian A1 - Bruening, Jan Joris A1 - Spuler, Andreas A1 - Hege, Hans-Christian A1 - Voss, Samuel A1 - Janiga, Gábor A1 - Saalfeld, Sylvia A1 - Beuing, Oliver A1 - Berg, Philipp T1 - Multiple Aneurysms AnaTomy CHallenge 2018 (MATCH): Uncertainty Quantification of Geometric Rupture Risk Parameters JF - BioMedical Engineering OnLine N2 - Background Geometric parameters have been proposed for prediction of cerebral aneurysm rupture risk. Predicting the rupture risk for incidentally detected unruptured aneurysms could help clinicians in their treatment decision. However, assessment of geometric parameters depends on several factors, including the spatial resolution of the imaging modality used and the chosen reconstruction procedure. The aim of this study was to investigate the uncertainty of a variety of previously proposed geometric parameters for rupture risk assessment, caused by variability of reconstruction procedures. Materials 26 research groups provided segmentations and surface reconstructions of five cerebral aneurysms as part of the Multiple Aneurysms AnaTomy CHallenge (MATCH) 2018. 40 dimensional and non-dimensional geometric parameters, describing aneurysm size, neck size, and irregularity of aneurysm shape, were computed. The medians as well as the absolute and relative uncertainties of the parameters were calculated. Additionally, linear regression analysis was performed on the absolute uncertainties and the median parameter values. Results A large variability of relative uncertainties in the range between 3.9 and 179.8% was found. Linear regression analysis indicates that some parameters capture similar geometric aspects. The lowest uncertainties < 6% were found for the non-dimensional parameters isoperimetric ratio, convexity ratio, and ellipticity index. Uncertainty of 2D and 3D size parameters was significantly higher than uncertainty of 1D parameters. The most extreme uncertainties > 80% were found for some curvature parameters. Conclusions Uncertainty analysis is essential on the road to clinical translation and use of rupture risk prediction models. Uncertainty quantification of geometric rupture risk parameters provided by this study may help support development of future rupture risk prediction models. Y1 - 2019 U6 - https://doi.org/10.1186/s12938-019-0657-y VL - 18 IS - 35 ER -