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Annika Reinke
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- affiliation: German Cancer Research Center, Heidelberg, Germany
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2020 – today
- 2024
- [c8]Lisa Mais, Peter Hirsch, Claire Managan, Ramya Kandarpa, Josef Lorenz Rumberger, Annika Reinke, Lena Maier-Hein, Gudrun Ihrke, Dagmar Kainmueller:
FISBe: A Real-World Benchmark Dataset for Instance Segmentation of Long-Range thin Filamentous Structures. CVPR 2024: 22249-22259 - [c7]Tim Rädsch
, Annika Reinke
Quality Assured: Rethinking Annotation Strategies in Imaging AI. ECCV (78) 2024: 52-69 - [c6]Evangelia Christodoulou, Annika Reinke, Rola Houhou, Piotr Kalinowski, Selen Erkan, Carole H. Sudre, Ninon Burgos, Sofiène Boutaj, Sophie Loizillon, Maëlys Solal, Nicola Rieke, Veronika Cheplygina, Michela Antonelli, Leon D. Mayer, Minu Dietlinde Tizabi, M. Jorge Cardoso, Amber L. Simpson, Paul F. Jäger, Annette Kopp-Schneider, Gaël Varoquaux, Olivier Colliot, Lena Maier-Hein:
Confidence Intervals Uncovered: Are We Ready for Real-World Medical Imaging AI? MICCAI (10) 2024: 124-132 - [i23]Lisa Mais, Peter Hirsch, Claire Managan, Ramya Kandarpa, Josef Lorenz Rumberger, Annika Reinke, Lena Maier-Hein, Gudrun Ihrke, Dagmar Kainmueller:
FISBe: A real-world benchmark dataset for instance segmentation of long-range thin filamentous structures. CoRR abs/2404.00130 (2024) - [i22]Tim Rädsch, Annika Reinke, Vivienn Weru, Minu Dietlinde Tizabi, Nicholas Heller, Fabian Isensee, Annette Kopp-Schneider, Lena Maier-Hein:
Quality Assured: Rethinking Annotation Strategies in Imaging AI. CoRR abs/2407.17596 (2024) - 2023
- [b1]Annika Reinke:
Eliminating flaws in biomedical image analysis validation. Heidelberg University, Germany, 2023 - [j8]Thuy Nuong Tran
Sources of performance variability in deep learning-based polyp detection. Int. J. Comput. Assist. Radiol. Surg. 18(7): 1311-1322 (2023) - [j7]Tobias Roß
Beyond rankings: Learning (more) from algorithm validation. Medical Image Anal. 86: 102765 (2023) - [j6]Martin Wagner
Comparative validation of machine learning algorithms for surgical workflow and skill analysis with the HeiChole benchmark. Medical Image Anal. 86: 102770 (2023) - [j5]Tim Rädsch
Labelling instructions matter in biomedical image analysis. Nat. Mac. Intell. 5(3): 273-283 (2023) - [c5]Annika Reinke, Georg Grab, Lena Maier-Hein:
Challenge Results are not Reproducible. Bildverarbeitung für die Medizin 2023: 198-203 - [c4]David Zimmerer, Peter M. Full, Fabian Isensee, Paul Jäger, Tim Adler, Jens Petersen, Gregor Köhler, Tobias Roß, Annika Reinke, Antanas Kascenas, Bjørn Sand Jensen, Alison Q. O'Neil, Jeremy Tan, Benjamin Hou, James Batten, Huaqi Qiu, Bernhard Kainz
Abstract: MOOD 2020 - A Public Benchmark for Out-of-distribution Detection and Localization on Medical Images. Bildverarbeitung für die Medizin 2023: 312 - [c3]Matthias Eisenmann, Annika Reinke, Vivienn Weru, Minu Dietlinde Tizabi, Fabian Isensee, Tim J. Adler, Sharib Ali
Why is the Winner the Best? CVPR 2023: 19955-19966 - [c2]Patrick Godau, Piotr Kalinowski, Evangelia Christodoulou, Annika Reinke, Minu Tizabi, Luciana Ferrer, Paul F. Jäger, Lena Maier-Hein:
Deployment of Image Analysis Algorithms Under Prevalence Shifts. MICCAI (3) 2023: 389-399 - [e1]M. Emre Celebi
Medical Image Computing and Computer Assisted Intervention - MICCAI 2023 Workshops - ISIC 2023, Care-AI 2023, MedAGI 2023, DeCaF 2023, Held in Conjunction with MICCAI 2023, Vancouver, BC, Canada, October 8-12, 2023, Proceedings. Lecture Notes in Computer Science 14393, Springer 2023, ISBN 978-3-031-47400-2 [contents] - [i21]Annika Reinke, Minu Tizabi, Michael Baumgartner, Matthias Eisenmann, Doreen Heckmann-Nötzel, A. Emre Kavur, Tim Rädsch, Carole H. Sudre, Laura Ación
Understanding metric-related pitfalls in image analysis validation. CoRR abs/2302.01790 (2023) - [i20]Patrick Godau, Piotr Kalinowski, Evangelia Christodoulou, Annika Reinke, Minu Tizabi, Luciana Ferrer, Paul Jäger, Lena Maier-Hein:
Deployment of Image Analysis Algorithms under Prevalence Shifts. CoRR abs/2303.12540 (2023) - [i19]Matthias Eisenmann, Annika Reinke, Vivienn Weru, Minu Dietlinde Tizabi, Fabian Isensee, Tim J. Adler, Sharib Ali
Why is the winner the best? CoRR abs/2303.17719 (2023) - [i18]Annika Reinke, Georg Grab, Lena Maier-Hein:
Challenge Results Are Not Reproducible. CoRR abs/2307.07226 (2023) - [i17]Tim J. Adler, Jan-Hinrich Nölke
Application-driven Validation of Posteriors in Inverse Problems. CoRR abs/2309.09764 (2023) - [i16]Florian Kofler, Hendrik Kristian Möller, Josef A. Buchner
Panoptica - instance-wise evaluation of 3D semantic and instance segmentation maps. CoRR abs/2312.02608 (2023) - 2022
- [j4]Esther E. Bron
Ten years of image analysis and machine learning competitions in dementia. NeuroImage 253: 119083 (2022) - [j3]David Zimmerer
MOOD 2020: A Public Benchmark for Out-of-Distribution Detection and Localization on Medical Images. IEEE Trans. Medical Imaging 41(10): 2728-2738 (2022) - [i15]Lena Maier-Hein, Annika Reinke, Evangelia Christodoulou, Ben Glocker, Patrick Godau, Fabian Isensee, Jens Kleesiek, Michal Kozubek, Mauricio Reyes, Michael A. Riegler, Manuel Wiesenfarth, Michael Baumgartner, Matthias Eisenmann, Doreen Heckmann-Nötzel, A. Emre Kavur, Tim Rädsch, Minu Dietlinde Tizabi, Laura Ación
Metrics reloaded: Pitfalls and recommendations for image analysis validation. CoRR abs/2206.01653 (2022) - [i14]Tim Rädsch, Annika Reinke, Vivienn Weru, Minu Dietlinde Tizabi, Nicholas Schreck, A. Emre Kavur, Bünyamin Pekdemir, Tobias Roß, Annette Kopp-Schneider, Lena Maier-Hein:
Labeling instructions matter in biomedical image analysis. CoRR abs/2207.09899 (2022) - [i13]Thuy Nuong Tran, Tim Adler, Amine Yamlahi, Evangelia Christodoulou, Patrick Godau, Annika Reinke, Minu Dietlinde Tizabi, Peter Sauer, Tillmann Persicke, Jörg Gerhard Albert, Lena Maier-Hein:
Sources of performance variability in deep learning-based polyp detection. CoRR abs/2211.09708 (2022) - [i12]Matthias Eisenmann, Annika Reinke, Vivienn Weru, Minu Dietlinde Tizabi, Fabian Isensee, Tim J. Adler, Patrick Godau, Veronika Cheplygina, Michal Kozubek, Sharib Ali
Biomedical image analysis competitions: The state of current participation practice. CoRR abs/2212.08568 (2022) - 2021
- [j2]Tobias Roß, Annika Reinke, Peter M. Full
Comparative validation of multi-instance instrument segmentation in endoscopy: Results of the ROBUST-MIS 2019 challenge. Medical Image Anal. 70: 101920 (2021) - [i11]Annika Reinke, Matthias Eisenmann, Minu Dietlinde Tizabi, Carole H. Sudre, Tim Rädsch, Michela Antonelli, Tal Arbel, Spyridon Bakas, M. Jorge Cardoso, Veronika Cheplygina, Keyvan Farahani, Ben Glocker, Doreen Heckmann-Nötzel, Fabian Isensee, Pierre Jannin, Charles E. Kahn, Jens Kleesiek, Tahsin M. Kurç, Michal Kozubek, Bennett A. Landman, Geert Litjens, Klaus H. Maier-Hein, Bjoern H. Menze, Henning Müller, Jens Petersen, Mauricio Reyes, Nicola Rieke
Common Limitations of Image Processing Metrics: A Picture Story. CoRR abs/2104.05642 (2021) - [i10]Sarthak Pati, Ujjwal Baid, Maximilian Zenk, Brandon Edwards, Micah J. Sheller, G. Anthony Reina, Patrick Foley, Alexey Gruzdev, Jason Martin, Shadi Albarqouni, Yong Chen, Russell Taki Shinohara, Annika Reinke, David Zimmerer, John B. Freymann, Justin S. Kirby, Christos Davatzikos, Rivka R. Colen, Aikaterini Kotrotsou, Daniel S. Marcus, Mikhail Milchenko, Arash Nazeri, Hassan M. Fathallah-Shaykh, Roland Wiest, András Jakab
The Federated Tumor Segmentation (FeTS) Challenge. CoRR abs/2105.05874 (2021) - [i9]Michela Antonelli, Annika Reinke, Spyridon Bakas, Keyvan Farahani, Annette Kopp-Schneider, Bennett A. Landman, Geert Litjens, Bjoern H. Menze, Olaf Ronneberger, Ronald M. Summers, Bram van Ginneken, Michel Bilello, Patrick Bilic, Patrick Ferdinand Christ, Richard K. G. Do, Marc Gollub, Stephan Heckers, Henkjan J. Huisman, William R. Jarnagin, Maureen McHugo, Sandy Napel, Jennifer Goli-Pernicka, Kawal S. Rhode, Catalina Tobon-Gomez, Eugene Vorontsov, James A. Meakin, Sébastien Ourselin, Manuel Wiesenfarth, Pablo Arbeláez, Byeonguk Bae, Sihong Chen, Laura Alexandra Daza, Jianjiang Feng, Baochun He, Fabian Isensee, Yuanfeng Ji, Fucang Jia, Namkug Kim, Ildoo Kim, Dorit Merhof, Akshay Pai, BeomHee Park, Mathias Perslev, Ramin Rezaiifar, Oliver Rippel, Ignacio Sarasua, Wei Shen, Jaemin Son, Christian Wachinger, Liansheng Wang, Yan Wang, Yingda Xia, Daguang Xu, Zhanwei Xu, Yefeng Zheng, Amber L. Simpson, Lena Maier-Hein, M. Jorge Cardoso:
The Medical Segmentation Decathlon. CoRR abs/2106.05735 (2021) - [i8]Tobias Roß, Pierangela Bruno, Annika Reinke, Manuel Wiesenfarth, Lisa Koeppel, Peter M. Full, Bünyamin Pekdemir
How can we learn (more) from challenges? A statistical approach to driving future algorithm development. CoRR abs/2106.09302 (2021) - [i7]Martin Wagner, Beat Peter Müller-Stich, Anna Kisilenko, Duc Tran, Patrick Heger, Lars Mündermann, David M. Lubotsky, Benjamin Müller, Tornike Davitashvili, Manuela Capek, Annika Reinke, Tong Yu, Armine Vardazaryan, Chinedu Innocent Nwoye, Nicolas Padoy, Xinyang Liu, Eung-Joo Lee, Constantin Disch, Hans Meine, Tong Xia, Fucang Jia, Satoshi Kondo, Wolfgang Reiter, Yueming Jin, Yonghao Long, Meirui Jiang, Qi Dou, Pheng-Ann Heng, Isabell Twick, Kadir Kirtaç, Enes Hosgor, Jon Lindström Bolmgren, Michael Stenzel, Björn von Siemens, Hannes Götz Kenngott, Felix Nickel, Moritz von Frankenberg, Franziska Mathis-Ullrich, Lena Maier-Hein, Stefanie Speidel, Sebastian Bodenstedt:
Comparative Validation of Machine Learning Algorithms for Surgical Workflow and Skill Analysis with the HeiChole Benchmark. CoRR abs/2109.14956 (2021) - [i6]Esther E. Bron, Stefan Klein, Annika Reinke, Janne M. Papma, Lena Maier-Hein, Daniel C. Alexander, Neil P. Oxtoby:
Ten years of image analysis and machine learning competitions in dementia. CoRR abs/2112.07922 (2021) - 2020
- [j1]Lena Maier-Hein, Annika Reinke, Michal Kozubek
BIAS: Transparent reporting of biomedical image analysis challenges. Medical Image Anal. 66: 101796 (2020) - [i5]Tobias Roß, Annika Reinke, Peter M. Full, Martin Wagner, Hannes Kenngott, Martin Apitz, Hellena Hempe, Diana Mîndroc-Filimon, Patrick Scholz, Thuy Nuong Tran, Pierangela Bruno, Pablo Arbeláez, Gui-Bin Bian, Sebastian Bodenstedt, Jon Lindström Bolmgren, Laura Bravo Sánchez
Robust Medical Instrument Segmentation Challenge 2019. CoRR abs/2003.10299 (2020) - [i4]Lena Maier-Hein, Martin Wagner, Tobias Roß, Annika Reinke, Sebastian Bodenstedt, Peter M. Full, Hellena Hempe, Diana Mîndroc-Filimon, Patrick Scholz, Thuy Nuong Tran, Pierangela Bruno, Anna Kisilenko, Benjamin Müller, Tornike Davitashvili, Manuela Capek, Minu Tizabi, Matthias Eisenmann, Tim J. Adler, Janek Gröhl, Melanie Schellenberg, Silvia Seidlitz, T. Y. Emmy Lai, Veith Roethlingshoefer, Fabian Both, Sebastian Bittel, Marc Mengler, Martin Apitz, Stefanie Speidel, Hannes Götz Kenngott, Beat P. Müller-Stich:
Heidelberg Colorectal Data Set for Surgical Data Science in the Sensor Operating Room. CoRR abs/2005.03501 (2020)
2010 – 2019
- 2019
- [i3]Lena Maier-Hein, Annika Reinke, Michal Kozubek, Anne L. Martel, Tal Arbel, Matthias Eisenmann, Allan Hanbury, Pierre Jannin, Henning Müller, Sinan Onogur, Julio Saez-Rodriguez, Bram van Ginneken, Annette Kopp-Schneider, Bennett A. Landman:
BIAS: Transparent reporting of biomedical image analysis challenges. CoRR abs/1910.04071 (2019) - [i2]Manuel Wiesenfarth, Annika Reinke, Bennett A. Landman, Manuel Jorge Cardoso, Lena Maier-Hein, Annette Kopp-Schneider:
Methods and open-source toolkit for analyzing and visualizing challenge results. CoRR abs/1910.05121 (2019) - 2018
- [c1]Annika Reinke, Matthias Eisenmann, Sinan Onogur, Marko Stankovic, Patrick Scholz, Peter M. Full, Hrvoje Bogunovic
How to Exploit Weaknesses in Biomedical Challenge Design and Organization. MICCAI (4) 2018: 388-395 - [d1]Lena Maier-Hein
Is the winner really the best? A critical analysis of common research practice in biomedical image analysis competitions. Zenodo, 2018 - [i1]Lena Maier-Hein, Matthias Eisenmann, Annika Reinke, Sinan Onogur, Marko Stankovic, Patrick Scholz, Tal Arbel, Hrvoje Bogunovic, Andrew P. Bradley, Aaron Carass, Carolin Feldmann, Alejandro F. Frangi, Peter M. Full, Bram van Ginneken, Allan Hanbury, Katrin Honauer, Michal Kozubek, Bennett A. Landman, Keno März, Oskar Maier, Klaus H. Maier-Hein, Bjoern H. Menze, Henning Müller, Peter F. Neher, Wiro J. Niessen, Nasir M. Rajpoot, Gregory C. Sharp, Korsuk Sirinukunwattana, Stefanie Speidel, Christian Stock, Danail Stoyanov, Abdel Aziz Taha, Fons van der Sommen, Ching-Wei Wang, Marc-André Weber, Guoyan Zheng, Pierre Jannin, Annette Kopp-Schneider:
Is the winner really the best? A critical analysis of common research practice in biomedical image analysis competitions. CoRR abs/1806.02051 (2018)
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