1 code implementation • 29 May 2023 • Philippe Weitz, Masi Valkonen, Leslie Solorzano, Circe Carr, Kimmo Kartasalo, Constance Boissin, Sonja Koivukoski, Aino Kuusela, Dusan Rasic, Yanbo Feng, Sandra Sinius Pouplier, Abhinav Sharma, Kajsa Ledesma Eriksson, Stephanie Robertson, Christian Marzahl, Chandler D. Gatenbee, Alexander R. A. Anderson, Marek Wodzinski, Artur Jurgas, Niccolò Marini, Manfredo Atzori, Henning Müller, Daniel Budelmann, Nick Weiss, Stefan Heldmann, Johannes Lotz, Jelmer M. Wolterink, Bruno De Santi, Abhijeet Patil, Amit Sethi, Satoshi Kondo, Satoshi Kasai, Kousuke Hirasawa, Mahtab Farrokh, Neeraj Kumar, Russell Greiner, Leena Latonen, Anne-Vibeke Laenkholm, Johan Hartman, Pekka Ruusuvuori, Mattias Rantalainen
The alignment of tissue between histopathological whole-slide-images (WSI) is crucial for research and clinical applications.
no code implementations • 13 Dec 2021 • Bhakti Baheti, Satrajit Chakrabarty, Hamed Akbari, Michel Bilello, Benedikt Wiestler, Julian Schwarting, Evan Calabrese, Jeffrey Rudie, Syed Abidi, Mina Mousa, Javier Villanueva-Meyer, Brandon K. K. Fields, Florian Kofler, Russell Takeshi Shinohara, Juan Eugenio Iglesias, Tony C. W. Mok, Albert C. S. Chung, Marek Wodzinski, Artur Jurgas, Niccolo Marini, Manfredo Atzori, Henning Muller, Christoph Grobroehmer, Hanna Siebert, Lasse Hansen, Mattias P. Heinrich, Luca Canalini, Jan Klein, Annika Gerken, Stefan Heldmann, Alessa Hering, Horst K. Hahn, Mingyuan Meng, Lei Bi, Dagan Feng, Jinman Kim, Ramy A. Zeineldin, Mohamed E. Karar, Franziska Mathis-Ullrich, Oliver Burgert, Javid Abderezaei, Aymeric Pionteck, Agamdeep Chopra, Mehmet Kurt, Kewei Yan, Yonghong Yan, Zhe Tang, Jianqiang Ma, Sahar Almahfouz Nasser, Nikhil Cherian Kurian, Mohit Meena, Saqib Shamsi, Amit Sethi, Nicholas J. Tustison, Brian B. Avants, Philip Cook, James C. Gee, Lin Tian, Hastings Greer, Marc Niethammer, Andrew Hoopes, Malte Hoffmann, Adrian V. Dalca, Stergios Christodoulidis, Theo Estiene, Maria Vakalopoulou, Nikos Paragios, Daniel S. Marcus, Christos Davatzikos, Aristeidis Sotiras, Bjoern Menze, Spyridon Bakas, Diana Waldmannstetter
Registration of longitudinal brain MRI scans containing pathologies is challenging due to dramatic changes in tissue appearance.
no code implementations • 8 Dec 2021 • Alessa Hering, Lasse Hansen, Tony C. W. Mok, Albert C. S. Chung, Hanna Siebert, Stephanie Häger, Annkristin Lange, Sven Kuckertz, Stefan Heldmann, Wei Shao, Sulaiman Vesal, Mirabela Rusu, Geoffrey Sonn, Théo Estienne, Maria Vakalopoulou, Luyi Han, Yunzhi Huang, Pew-Thian Yap, Mikael Brudfors, Yaël Balbastre, Samuel Joutard, Marc Modat, Gal Lifshitz, Dan Raviv, Jinxin Lv, Qiang Li, Vincent Jaouen, Dimitris Visvikis, Constance Fourcade, Mathieu Rubeaux, Wentao Pan, Zhe Xu, Bailiang Jian, Francesca De Benetti, Marek Wodzinski, Niklas Gunnarsson, Jens Sjölund, Daniel Grzech, Huaqi Qiu, Zeju Li, Alexander Thorley, Jinming Duan, Christoph Großbröhmer, Andrew Hoopes, Ingerid Reinertsen, Yiming Xiao, Bennett Landman, Yuankai Huo, Keelin Murphy, Nikolas Lessmann, Bram van Ginneken, Adrian V. Dalca, Mattias P. Heinrich
Image registration is a fundamental medical image analysis task, and a wide variety of approaches have been proposed.
1 code implementation • 24 Jun 2021 • Johannes Lotz, Nick Weiss, Jeroen van der Laak, Stefan Heldmann
Between re-stained sections, the median registration error is 2. 3 {\mu}m and 0. 9 {\mu}m in the two subsets of the HyReCo dataset.
no code implementations • 29 Nov 2020 • Alessa Hering, Stephanie Häger, Jan Moltz, Nikolas Lessmann, Stefan Heldmann, Bram van Ginneken
Deep-learning-based registration methods emerged as a fast alternative to conventional registration methods.
1 code implementation • 10 Jan 2020 • Roland Haase, Stefan Heldmann, Jan Lellmann
Low-rank and sparse decompositions and robust PCA (RPCA) are highly successful techniques in image processing and have recently found use in groupwise image registration.
no code implementations • 22 Sep 2019 • Alessa Hering, Bram van Ginneken, Stefan Heldmann
We show that the use of a deep learning multilevel approach leads to significantly better registration results.
no code implementations • 23 Jul 2019 • Kai Brehmer, Hari Om Aggrawal, Stefan Heldmann, Jan Modersitzki
Our results indicate that the SqN approach is in fact a suitable distance measure for image registration.
no code implementations • 28 Mar 2019 • Johannes Lotz, Nick Weiss, Stefan Heldmann
We present a 3-step registration pipeline for differently stained histological serial sections that consists of 1) a robust pre-alignment, 2) a parametric registration computed on coarse resolution images, and 3) an accurate nonlinear registration.
no code implementations • 5 Dec 2018 • Alessa Hering, Sven Kuckertz, Stefan Heldmann, Mattias Heinrich
While deep learning has achieved significant advances in accuracy for medical image segmentation, its benefits for deformable image registration have so far remained limited to reduced computation times.
no code implementations • 2 Jul 2018 • Jan Rühaak, Thomas Polzin, Stefan Heldmann, Ivor J. A. Simpson, Heinz Handels, Jan Modersitzki, Mattias P. Heinrich
Our method is designed for large respiratory motion by integrating sparse keypoint correspondences into a dense continuous optimization framework.