[ { "id": "bruckner-2009-BVQ", "type_id": "journalpaper", "tu_id": null, "repositum_id": null, "title": "BrainGazer - Visual Queries for Neurobiology Research", "date": "2009-11", "abstract": "Neurobiology investigates how anatomical and physiological relationships in the nervous system mediate behavior. Molecular genetic techniques, applied to species such as the common fruit fly Drosophila melanogaster, have proven to be an important tool in this research. Large databases of transgenic specimens are being built and need to be analyzed to establish models of neural information processing. In this paper we present an approach for the exploration and analysis of neural circuits based on such a database. We have designed and implemented BrainGazer, a system which integrates visualization techniques for volume data acquired through confocal microscopy as well as annotated anatomical structures with an intuitive approach for accessing the available information. We focus on the ability to visually query the data based on semantic as well as spatial relationships. Additionally, we present visualization techniques for the concurrent depiction of neurobiological volume data and geometric objects which aim to reduce visual clutter. The described system is the result of an ongoing interdisciplinary collaboration between neurobiologists and visualization researchers.", "authors_et_al": false, "substitute": null, "main_image": { "description": "Visualization of neural clusters in the fly brain", "filetitle": "Flybrain", "main_file": false, "use_in_gallery": false, "access": "public", "image_width": 1020, "image_height": 553, "name": "bruckner-2009-BVQ-Flybrain.jpg", "type": "image/jpeg", "size": 118424, "path": "Publication:bruckner-2009-BVQ", "url": "https://www.cg.tuwien.ac.at/research/publications/2009/bruckner-2009-BVQ/bruckner-2009-BVQ-Flybrain.jpg", "thumb_image_sizes": [ 16, 64, 100, 175, 300, 600 ], "thumb_url": "https://www.cg.tuwien.ac.at/research/publications/2009/bruckner-2009-BVQ/bruckner-2009-BVQ-Flybrain:thumb{{size}}.png" }, "sync_repositum_override": null, "repositum_presentation_id": null, "authors": [ 161, 896, 166, 187, 231, 821, 820 ], "date_from": "2009-10-11", "date_to": "2009-10-16", "event": "IEEE Visualization 2009", "journal": "IEEE Transactions on Visualization and Computer Graphics", "lecturer": [ 161 ], "location": "Atlantic City, New Jersey, USA", "number": "6", "pages_from": "1497", "pages_to": "1504", "volume": "15", "research_areas": [], "keywords": [ "biomedical visualization", "neurobiology", "visual queries", "volume visualization" ], "weblinks": [], "files": [ { "description": "Visualization of neural clusters in the fly brain", "filetitle": "Flybrain", "main_file": false, "use_in_gallery": false, "access": "public", "image_width": 1020, "image_height": 553, "name": "bruckner-2009-BVQ-Flybrain.jpg", "type": "image/jpeg", "size": 118424, "path": "Publication:bruckner-2009-BVQ", "url": "https://www.cg.tuwien.ac.at/research/publications/2009/bruckner-2009-BVQ/bruckner-2009-BVQ-Flybrain.jpg", "thumb_image_sizes": [ 16, 64, 100, 175, 300, 600 ], "thumb_url": "https://www.cg.tuwien.ac.at/research/publications/2009/bruckner-2009-BVQ/bruckner-2009-BVQ-Flybrain:thumb{{size}}.png" }, { "description": "", "filetitle": "Paper", "main_file": true, "use_in_gallery": false, "access": "public", "name": "bruckner-2009-BVQ-Paper.pdf", "type": "application/pdf", "size": 28390882, "path": "Publication:bruckner-2009-BVQ", "url": "https://www.cg.tuwien.ac.at/research/publications/2009/bruckner-2009-BVQ/bruckner-2009-BVQ-Paper.pdf", "thumb_image_sizes": [ 16, 64, 100, 175, 300, 600 ], "thumb_url": "https://www.cg.tuwien.ac.at/research/publications/2009/bruckner-2009-BVQ/bruckner-2009-BVQ-Paper:thumb{{size}}.png" }, { "description": "Video demonstration of the BrainGazer system (DivX codec)", "filetitle": "Video", "main_file": false, "use_in_gallery": false, "access": "public", "preview_image_width": 1068, "preview_image_height": 652, "name": "bruckner-2009-BVQ-Video.avi", "type": "video/x-msvideo", "size": 32610624, "path": "Publication:bruckner-2009-BVQ", "preview_name": "bruckner-2009-BVQ-Video:preview.png", "preview_type": "image/jpeg", "preview_size": 41177, "url": "https://www.cg.tuwien.ac.at/research/publications/2009/bruckner-2009-BVQ/bruckner-2009-BVQ-Video.avi", "thumb_image_sizes": [ 16, 64, 100, 175, 300, 600 ], "thumb_url": "https://www.cg.tuwien.ac.at/research/publications/2009/bruckner-2009-BVQ/bruckner-2009-BVQ-Video:thumb{{size}}.png", "video_mp4": "https://www.cg.tuwien.ac.at/research/publications/2009/bruckner-2009-BVQ/bruckner-2009-BVQ-Video:video.mp4" } ], "projects_workgroups": [ "vis" ], "url": "https://www.cg.tuwien.ac.at/research/publications/2009/bruckner-2009-BVQ/", "__class": "Publication" }, { "id": "Theussl-2003-Rec", "type_id": "inproceedings", "tu_id": null, "repositum_id": null, "title": "Reconstruction issues in volume visualization", "date": "2003", "abstract": null, "authors_et_al": false, "substitute": null, "main_image": null, "sync_repositum_override": null, "repositum_presentation_id": null, "authors": [ 175, 336, 187, 166 ], "booktitle": "Data Visualization: The state of the art", "editor": "F. Post, G. Nielson, G.P. Bonneau", "isbn": "1402072597", "pages_from": "109", "pages_to": "124", "publisher": "Kluwer Academic Publishers", "research_areas": [], "keywords": [], "weblinks": [], "files": [], "projects_workgroups": [], "url": "https://www.cg.tuwien.ac.at/research/publications/2003/Theussl-2003-Rec/", "__class": "Publication" }, { "id": "kanitsar-2002-Chr", "type_id": "techreport", "tu_id": null, "repositum_id": null, "title": "Christmas Tree Case Study: Computed Tomography as a Tool for Mastering Complex Real World Objects with Applications in Computer Graphics", "date": "2002-03", "abstract": "We report on using computed tomography (CT) as a model acquisition\ntool for complex objects in computer graphics. Unlike other modeling\nand scanning techniques the complexity of the object is irrelevant in\nCT, which naturally enables to model objects with, for example,\nconcavities, holes, twists or fine surface details. Once the data is\nscanned, one can apply post-processing techniques aimed at its further\nenhancement, modification or presentation. For demonstration purposes\nwe chose to scan a Christmas tree which exhibits high complexity which\nis difficult or even impossible to handle with other\ntechniques. However, care has to be taken to achieve good scanning\nresults with CT. Further, we illustrate the post-processing by means\nof data segmentation and photorealistic as well as non-photorealistic\n\t\t surface and volume rendering techniques.", "authors_et_al": false, "substitute": null, "main_image": null, "sync_repositum_override": null, "repositum_presentation_id": null, "authors": [ 162, 175, 184, 170, 459, 233, 187, 188, 172, 165, 189, 164, 190, 166 ], "number": "TR-186-2-02-07", "pages_from": "1", "pages_to": "4", "research_areas": [], "keywords": [ "volume visualization", "computed tomography", "modeling" ], "weblinks": [], "files": [ { "description": null, "filetitle": "paper", "main_file": true, "use_in_gallery": false, "access": "public", "name": "kanitsar-2002-Chr-paper.pdf", "type": "application/pdf", "size": 2000473, "path": "Publication:kanitsar-2002-Chr", "url": "https://www.cg.tuwien.ac.at/research/publications/2002/kanitsar-2002-Chr/kanitsar-2002-Chr-paper.pdf", "thumb_image_sizes": [] } ], "projects_workgroups": [], "url": "https://www.cg.tuwien.ac.at/research/publications/2002/kanitsar-2002-Chr/", "__class": "Publication" }, { "id": "Hladuvka-2002-Exp", "type_id": "journalpaper_notalk", "tu_id": null, "repositum_id": null, "title": "Exploiting the Hessian matrix for content-based retrieval of volume-data features", "date": "2002", "abstract": "", "authors_et_al": false, "substitute": null, "main_image": null, "sync_repositum_override": null, "repositum_presentation_id": null, "authors": [ 187, 166 ], "journal": "Visual Computer", "number": "4", "pages_from": "207", "pages_to": "217", "volume": "18", "research_areas": [], "keywords": [], "weblinks": [], "files": [], "projects_workgroups": [ "ADAPT" ], "url": "https://www.cg.tuwien.ac.at/research/publications/2002/Hladuvka-2002-Exp/", "__class": "Publication" }, { "id": "hladuvka-2002-exploiting", "type_id": "journalpaper_notalk", "tu_id": null, "repositum_id": null, "title": "Exploiting the Hessian matrix for content -based retrieval of volume-data features", "date": "2002", "abstract": "", "authors_et_al": false, "substitute": null, "main_image": null, "sync_repositum_override": null, "repositum_presentation_id": null, "authors": [ 187, 166 ], "journal": "Visual Computer", "number": "18", "pages_from": "207", "pages_to": "217", "research_areas": [], "keywords": [], "weblinks": [], "files": [], "projects_workgroups": [ "vis" ], "url": "https://www.cg.tuwien.ac.at/research/publications/2002/hladuvka-2002-exploiting/", "__class": "Publication" }, { "id": "Hladuvka-2002-Sma", "type_id": "journalpaper_notalk", "tu_id": null, "repositum_id": null, "title": "Smallest second-order derivatives for efficient volume-data representation", "date": "2002", "abstract": "", "authors_et_al": false, "substitute": null, "main_image": null, "sync_repositum_override": null, "repositum_presentation_id": null, "authors": [ 187, 166 ], "journal": "Computers & Graphics", "number": "2", "pages_from": "229", "pages_to": "238", "volume": "26", "research_areas": [], "keywords": [], "weblinks": [], "files": [], "projects_workgroups": [], "url": "https://www.cg.tuwien.ac.at/research/publications/2002/Hladuvka-2002-Sma/", "__class": "Publication" }, { "id": "Theussl-2001-RIV", "type_id": "techreport", "tu_id": null, "repositum_id": null, "title": "Reconstruction Issues in Volume Visualization", "date": "2001-06", "abstract": "Although volume visualization has already grown out of its infancy,\nthe most commonly used reconstruction techniques are still trilinear\ninterpolation for function reconstruction and central differences\n(most often in conjunction with trilinear interpolation) for\ngradient reconstruction. Nevertheless, quite some research in the\nlast few years was devoted to improve this situation. This paper\nsurveys the more important methods, emphasizing selected work in\nfunction and gradient reconstruction, and gives an overview over the\nrather new development of exploiting curvature properties for volume\n visualization purposes.", "authors_et_al": false, "substitute": null, "main_image": null, "sync_repositum_override": null, "repositum_presentation_id": null, "authors": [ 175, 196, 187, 166 ], "number": "TR-186-2-01-14", "pages_from": "1", "pages_to": "7", "research_areas": [], "keywords": [ "Taylor series expansion", "frequency response", "windowing", "ideal reconstruction" ], "weblinks": [], "files": [ { "description": null, "filetitle": "paper", "main_file": true, "use_in_gallery": false, "access": "public", "name": "Theussl-2001-RIV-paper.gz", "type": "application/octet-stream", "size": 81031, "path": "Publication:Theussl-2001-RIV", "url": "https://www.cg.tuwien.ac.at/research/publications/2001/Theussl-2001-RIV/Theussl-2001-RIV-paper.gz", "thumb_image_sizes": [] } ], "projects_workgroups": [], "url": "https://www.cg.tuwien.ac.at/research/publications/2001/Theussl-2001-RIV/", "__class": "Publication" }, { "id": "Hladuvka-2001-DDI", "type_id": "techreport", "tu_id": null, "repositum_id": null, "title": "Direction-Driven Shape-Based Interpolation of Volume Data", "date": "2001-05", "abstract": "We present a novel approach to shape-based interpolation of\ngray-level volume data. In contrast to the segmentation-based\ntechniques our method directly processes the scalar volume\nrequiring no user interaction. The key idea is to perform the\ninterpolation in the directions given by analysis of the\neigensystem of the structure tensor. Our method processes a 256\nx 256 slice within a couple of seconds yielding satisfactory\nresults. We give a quantitative and a visual comparison to the\nlinear inter-slice interpolation. Analysis of the results lead\nus to the conclusion that our technique has a strong potential\nto compete with well-established shape-based interpolation\n algorithms.", "authors_et_al": false, "substitute": null, "main_image": null, "sync_repositum_override": null, "repositum_presentation_id": null, "authors": [ 187, 166 ], "number": "TR-186-2-01-12", "pages_from": "1", "pages_to": "9", "research_areas": [], "keywords": [ "Eigensystem", "Structure Tensor", "Local Neighborhoods", "Shape-based Interpolation" ], "weblinks": [], "files": [ { "description": null, "filetitle": "paper", "main_file": true, "use_in_gallery": false, "access": "public", "name": "Hladuvka-2001-DDI-paper.pdf", "type": "application/pdf", "size": 598262, "path": "Publication:Hladuvka-2001-DDI", "url": "https://www.cg.tuwien.ac.at/research/publications/2001/Hladuvka-2001-DDI/Hladuvka-2001-DDI-paper.pdf", "thumb_image_sizes": [] } ], "projects_workgroups": [], "url": "https://www.cg.tuwien.ac.at/research/publications/2001/Hladuvka-2001-DDI/", "__class": "Publication" }, { "id": "a-2001-Rec", "type_id": "misc", "tu_id": null, "repositum_id": null, "title": "Reconstruction Issues in Volume Visualization", "date": "2001", "abstract": null, "authors_et_al": false, "substitute": null, "main_image": null, "sync_repositum_override": null, "repositum_presentation_id": null, "authors": [ 166, 175, 187, 196 ], "note": "Proceedings of Dagstuhl Seminar on Scientific Visualization, 2000", "research_areas": [], "keywords": [], "weblinks": [], "files": [], "projects_workgroups": [], "url": "https://www.cg.tuwien.ac.at/research/publications/2001/a-2001-Rec/", "__class": "Publication" }, { "id": "Hladuvka-2001-Dir", "type_id": "misc", "tu_id": null, "repositum_id": null, "title": "Direction-Driven Shape-Based Interpolation of Volume Data", "date": "2001", "abstract": null, "authors_et_al": false, "substitute": null, "main_image": null, "sync_repositum_override": null, "repositum_presentation_id": null, "authors": [ 166, 187 ], "note": "Proceedings of Vision, Modeling and Visualization 2001, November 2001, Stuttgart, Germany, pages 113-120,521", "research_areas": [], "keywords": [], "weblinks": [], "files": [], "projects_workgroups": [], "url": "https://www.cg.tuwien.ac.at/research/publications/2001/Hladuvka-2001-Dir/", "__class": "Publication" }, { "id": "Hladuvka-2001-Exp", "type_id": "misc", "tu_id": null, "repositum_id": null, "title": "Exploiting Eigenvalues of the Hessian Matrix for Volume Decimation", "date": "2001", "abstract": null, "authors_et_al": false, "substitute": null, "main_image": null, "sync_repositum_override": null, "repositum_presentation_id": null, "authors": [ 166, 187, 197 ], "note": "In conference proceedings of the 9th International Conference in Central Europe on Computer Graphics, Visualization and Computer Vision 2001, WSCG'2001, University of West Bohemia, Pilsen, Czech Republic, Vaclav Skala (ed.), February 2001, vol. 1, pp. 124-129", "research_areas": [], "keywords": [], "weblinks": [], "files": [], "projects_workgroups": [], "url": "https://www.cg.tuwien.ac.at/research/publications/2001/Hladuvka-2001-Exp/", "__class": "Publication" }, { "id": "Hladuvka-2001-Sal", "type_id": "misc", "tu_id": null, "repositum_id": null, "title": "Salient Representation of Volume Data", "date": "2001", "abstract": null, "authors_et_al": false, "substitute": null, "main_image": null, "sync_repositum_override": null, "repositum_presentation_id": null, "authors": [ 166, 187 ], "note": "Proceedings of VisSym'01, Joint Eurographics - IEEE TCVG Symposium on Visualization, May 28 - May 30, 2001, Ascona, Switzerland, pages 203-211,351", "research_areas": [], "keywords": [], "weblinks": [], "files": [], "projects_workgroups": [], "url": "https://www.cg.tuwien.ac.at/research/publications/2001/Hladuvka-2001-Sal/", "__class": "Publication" }, { "id": "Hladuvka-thesis", "type_id": "phdthesis", "tu_id": null, "repositum_id": "20.500.12708/13523", "title": "Derivatives and Eigensystems for Volume-Data Analysis and Visualization", "date": "2001", "abstract": null, "authors_et_al": false, "substitute": null, "main_image": null, "sync_repositum_override": null, "repositum_presentation_id": null, "authors": [ 187 ], "date_end": "2001-12", "date_start": "1998-06", "open_access": "yes", "pages": "116", "supervisor": [ 166 ], "research_areas": [], "keywords": [ "Volumendaten", "Datenanalyse", "Visualisierung", "Klassifikation" ], "weblinks": [], "files": [ { "description": null, "filetitle": "pdf", "main_file": true, "use_in_gallery": false, "access": "public", "name": "Hladuvka-thesis-pdf.pdf", "type": "application/pdf", "size": 14267732, "path": "Publication:Hladuvka-thesis", "url": "https://www.cg.tuwien.ac.at/research/publications/2001/Hladuvka-thesis/Hladuvka-thesis-pdf.pdf", "thumb_image_sizes": [ 16, 64, 100, 175, 300, 600 ], "thumb_url": "https://www.cg.tuwien.ac.at/research/publications/2001/Hladuvka-thesis/Hladuvka-thesis-pdf:thumb{{size}}.png" } ], "projects_workgroups": [], "url": "https://www.cg.tuwien.ac.at/research/publications/2001/Hladuvka-thesis/", "__class": "Publication" }, { "id": "Hladuvka-2000-Exp", "type_id": "techreport", "tu_id": null, "repositum_id": null, "title": "Salient Representation of Volume Data", "date": "2000-12", "abstract": "We introduce a novel approach for identification of objects of\ninterest in volume data. Our approach tries to convey the\ninformation contained in two essentially different concepts, the\nobject's boundaries and the narrow solid structures, in an easy\nand uniform way. The second order derivative operators in\ndirections reaching minimal response are involved for this task.\nTo show the superior performance of our method, we provide a\ncomparison to its main competitor -- surface extraction from\nareas of maximal gradient magnitude. We show that our approach\nprovides the possibility to represent volume data by its subset\n of a nominal size.", "authors_et_al": false, "substitute": null, "main_image": null, "sync_repositum_override": null, "repositum_presentation_id": null, "authors": [ 187, 166 ], "number": "TR-186-2-00-26", "pages_from": "1", "pages_to": "10", "research_areas": [], "keywords": [ "Gradient vector", "Hessian matrix", "Feature Extraction", "Sufrace Extraction", "Volume Rendering" ], "weblinks": [], "files": [ { "description": null, "filetitle": "paper", "main_file": true, "use_in_gallery": false, "access": "public", "name": "Hladuvka-2000-Exp-paper.gz", "type": "application/octet-stream", "size": 360519, "path": "Publication:Hladuvka-2000-Exp", "url": "https://www.cg.tuwien.ac.at/research/publications/2000/Hladuvka-2000-Exp/Hladuvka-2000-Exp-paper.gz", "thumb_image_sizes": [] } ], "projects_workgroups": [], "url": "https://www.cg.tuwien.ac.at/research/publications/2000/Hladuvka-2000-Exp/", "__class": "Publication" }, { "id": "Hladuvka-2000-ExpX", "type_id": "techreport", "tu_id": null, "repositum_id": null, "title": "Exploiting Eigenvalues of the Hessian Matrix for Volume Decimation", "date": "2000-10", "abstract": "In recent years the Hessian matrix and its eigenvalues became\nimportant in pattern recognition. Several algorithms based on the\ninformation they provide have been introduced. We recall the\nrelationship between the eigenvalues of Hessian matrix and the 2nd\norder edge detection filter, show the usefulness of treating them\nseparately and exploit these facts to design a combined threshold\n operation to generate sparse data sets.", "authors_et_al": false, "substitute": null, "main_image": null, "sync_repositum_override": null, "repositum_presentation_id": null, "authors": [ 187, 166 ], "number": "TR-186-2-00-19", "pages_from": "1", "pages_to": "7", "research_areas": [], "keywords": [ "Laplacian filter", "Eigenvalues", "Hessian matrix", "Sparse data", "Volume Rendering" ], "weblinks": [], "files": [ { "description": null, "filetitle": "paper", "main_file": true, "use_in_gallery": false, "access": "public", "name": "Hladuvka-2000-ExpX-paper.gz", "type": "application/octet-stream", "size": 532738, "path": "Publication:Hladuvka-2000-ExpX", "url": "https://www.cg.tuwien.ac.at/research/publications/2000/Hladuvka-2000-ExpX/Hladuvka-2000-ExpX-paper.gz", "thumb_image_sizes": [] } ], "projects_workgroups": [], "url": "https://www.cg.tuwien.ac.at/research/publications/2000/Hladuvka-2000-ExpX/", "__class": "Publication" }, { "id": "Hladuvka-2000-Cur", "type_id": "misc", "tu_id": null, "repositum_id": null, "title": "Curvature-Based Transfer Functions for Direct Volume Rendering", "date": "2000", "abstract": null, "authors_et_al": false, "substitute": null, "main_image": null, "sync_repositum_override": null, "repositum_presentation_id": null, "authors": [ 166, 187, 197 ], "note": "Proceedings of Spring Conference on Computer Graphics and its Applications 2000 (SCCG 2000), Budmerice, Slovakia, May 3rd-6th, 2000, pp. 58-65", "research_areas": [], "keywords": [], "weblinks": [], "files": [], "projects_workgroups": [], "url": "https://www.cg.tuwien.ac.at/research/publications/2000/Hladuvka-2000-Cur/", "__class": "Publication" } ]