Gunzer, Matthias
Adaptive Kinematic Modeling for Improved Hand Posture Estimates Using a Haptic Glove
Krieger, Kathrin, Leins, David P., Markmann, Thorben, Haschke, Robert, Chen, Jianxu, Gunzer, Matthias, Ritter, Helge
Most commercially available haptic gloves compromise the accuracy of hand-posture measurements in favor of a simpler design with fewer sensors. While inaccurate posture data is often sufficient for the task at hand in biomedical settings such as VR-therapy-aided rehabilitation, measurements should be as precise as possible to digitally recreate hand postures as accurately as possible. With these applications in mind, we have added extra sensors to the commercially available Dexmo haptic glove by Dexta Robotics and applied kinematic models of the haptic glove and the user's hand to improve the accuracy of hand-posture measurements. In this work, we describe the augmentations and the kinematic modeling approach. Additionally, we present and discuss an evaluation of hand posture measurements as a proof of concept.
Implicit Neural Image Field for Biological Microscopy Image Compression
Dai, Gaole, Tseng, Cheng-Ching, Wuwu, Qingpo, Zhang, Rongyu, Wang, Shaokang, Lu, Ming, Huang, Tiejun, Zhou, Yu, Tuz, Ali Ata, Gunzer, Matthias, Chen, Jianxu, Zhang, Shanghang
The rapid pace of innovation in biological microscopy imaging has led to large images, putting pressure on data storage and impeding efficient sharing, management, and visualization. This necessitates the development of efficient compression solutions. Traditional CODEC methods struggle to adapt to the diverse bioimaging data and often suffer from sub-optimal compression. In this study, we propose an adaptive compression workflow based on Implicit Neural Representation (INR). This approach permits application-specific compression objectives, capable of compressing images of any shape and arbitrary pixel-wise decompression. We demonstrated on a wide range of microscopy images from real applications that our workflow not only achieved high, controllable compression ratios (e.g., 512x) but also preserved detailed information critical for downstream analysis.
MedShapeNet -- A Large-Scale Dataset of 3D Medical Shapes for Computer Vision
Li, Jianning, Zhou, Zongwei, Yang, Jiancheng, Pepe, Antonio, Gsaxner, Christina, Luijten, Gijs, Qu, Chongyu, Zhang, Tiezheng, Chen, Xiaoxi, Li, Wenxuan, Wodzinski, Marek, Friedrich, Paul, Xie, Kangxian, Jin, Yuan, Ambigapathy, Narmada, Nasca, Enrico, Solak, Naida, Melito, Gian Marco, Vu, Viet Duc, Memon, Afaque R., Schlachta, Christopher, De Ribaupierre, Sandrine, Patel, Rajnikant, Eagleson, Roy, Chen, Xiaojun, Mächler, Heinrich, Kirschke, Jan Stefan, de la Rosa, Ezequiel, Christ, Patrick Ferdinand, Li, Hongwei Bran, Ellis, David G., Aizenberg, Michele R., Gatidis, Sergios, Küstner, Thomas, Shusharina, Nadya, Heller, Nicholas, Andrearczyk, Vincent, Depeursinge, Adrien, Hatt, Mathieu, Sekuboyina, Anjany, Löffler, Maximilian, Liebl, Hans, Dorent, Reuben, Vercauteren, Tom, Shapey, Jonathan, Kujawa, Aaron, Cornelissen, Stefan, Langenhuizen, Patrick, Ben-Hamadou, Achraf, Rekik, Ahmed, Pujades, Sergi, Boyer, Edmond, Bolelli, Federico, Grana, Costantino, Lumetti, Luca, Salehi, Hamidreza, Ma, Jun, Zhang, Yao, Gharleghi, Ramtin, Beier, Susann, Sowmya, Arcot, Garza-Villarreal, Eduardo A., Balducci, Thania, Angeles-Valdez, Diego, Souza, Roberto, Rittner, Leticia, Frayne, Richard, Ji, Yuanfeng, Ferrari, Vincenzo, Chatterjee, Soumick, Dubost, Florian, Schreiber, Stefanie, Mattern, Hendrik, Speck, Oliver, Haehn, Daniel, John, Christoph, Nürnberger, Andreas, Pedrosa, João, Ferreira, Carlos, Aresta, Guilherme, Cunha, António, Campilho, Aurélio, Suter, Yannick, Garcia, Jose, Lalande, Alain, Vandenbossche, Vicky, Van Oevelen, Aline, Duquesne, Kate, Mekhzoum, Hamza, Vandemeulebroucke, Jef, Audenaert, Emmanuel, Krebs, Claudia, van Leeuwen, Timo, Vereecke, Evie, Heidemeyer, Hauke, Röhrig, Rainer, Hölzle, Frank, Badeli, Vahid, Krieger, Kathrin, Gunzer, Matthias, Chen, Jianxu, van Meegdenburg, Timo, Dada, Amin, Balzer, Miriam, Fragemann, Jana, Jonske, Frederic, Rempe, Moritz, Malorodov, Stanislav, Bahnsen, Fin H., Seibold, Constantin, Jaus, Alexander, Marinov, Zdravko, Jaeger, Paul F., Stiefelhagen, Rainer, Santos, Ana Sofia, Lindo, Mariana, Ferreira, André, Alves, Victor, Kamp, Michael, Abourayya, Amr, Nensa, Felix, Hörst, Fabian, Brehmer, Alexander, Heine, Lukas, Hanusrichter, Yannik, Weßling, Martin, Dudda, Marcel, Podleska, Lars E., Fink, Matthias A., Keyl, Julius, Tserpes, Konstantinos, Kim, Moon-Sung, Elhabian, Shireen, Lamecker, Hans, Zukić, Dženan, Paniagua, Beatriz, Wachinger, Christian, Urschler, Martin, Duong, Luc, Wasserthal, Jakob, Hoyer, Peter F., Basu, Oliver, Maal, Thomas, Witjes, Max J. H., Schiele, Gregor, Chang, Ti-chiun, Ahmadi, Seyed-Ahmad, Luo, Ping, Menze, Bjoern, Reyes, Mauricio, Deserno, Thomas M., Davatzikos, Christos, Puladi, Behrus, Fua, Pascal, Yuille, Alan L., Kleesiek, Jens, Egger, Jan
Prior to the deep learning era, shape was commonly used to describe the objects. Nowadays, state-of-the-art (SOTA) algorithms in medical imaging are predominantly diverging from computer vision, where voxel grids, meshes, point clouds, and implicit surface models are used. This is seen from numerous shape-related publications in premier vision conferences as well as the growing popularity of ShapeNet (about 51,300 models) and Princeton ModelNet (127,915 models). For the medical domain, we present a large collection of anatomical shapes (e.g., bones, organs, vessels) and 3D models of surgical instrument, called MedShapeNet, created to facilitate the translation of data-driven vision algorithms to medical applications and to adapt SOTA vision algorithms to medical problems. As a unique feature, we directly model the majority of shapes on the imaging data of real patients. As of today, MedShapeNet includes 23 dataset with more than 100,000 shapes that are paired with annotations (ground truth). Our data is freely accessible via a web interface and a Python application programming interface (API) and can be used for discriminative, reconstructive, and variational benchmarks as well as various applications in virtual, augmented, or mixed reality, and 3D printing. Exemplary, we present use cases in the fields of classification of brain tumors, facial and skull reconstructions, multi-class anatomy completion, education, and 3D printing. In future, we will extend the data and improve the interfaces. The project pages are: https://medshapenet.ikim.nrw/ and https://github.com/Jianningli/medshapenet-feedback