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NTIRE 2020 Challenge on Real-World image Super-Resolution: Methods and Results

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arXiv 2020年

作者： Lugmayr, Andreas Danelljan, Martin Timofte, Radu Ahn, Namhyuk Bai, Dongwoon Cai, Jie Cao, Yun Chen, Junyang Cheng, Kaihua Chun, SeYoung Deng, Wei El-Khamy, Mostafa Man Ho, Chiu Ji, Xiaozhong Kheradmand, Amin Kim, Gwantae Ko, Hanseok Lee, Kanghyu Lee, Jungwon Li, Hao Liu, Ziluan Liu, Zhi-Song Liu, Shuai Lu, Yunhua Meng, Zibo Navarrete Michelini, Pablo Micheloni, Christian Prajapati, Kalpesh Ren, Haoyu Hyeok Seo, Yong Siu, Wan-Chi Sohn, Kyung-Ah Tai, Ying Muhammad Umer, Rao Wang, Shuangquan Wang, Huibing Haoning Wu, Timothy Wu, Haoning Yang, Biao Yang, Fuzhi Yoo, Jaejun Zhao, Tongtong Zhou, Yuanbo Zhuo, Haijie Zong, Ziyao Zou, Xueyi Wang, Li-Wen Cani, Marie-Paule Siu, Wan-Chi Yang, Huan Fu, Jianlong Shi, Yukai Chen, Junyang Lee, Kanghyu Park, Jaihyun Lee, Junyeop Min, Jeongki Lee, Bokyeung Ko, Hanseok Yoo, Jaejun Sohn, Kyung-Ah Micheloni, Christian Hu, Fengshuo Wang, Yanhong Lu, Yunhua Peng, Jinjia Wang, Huibing Zhuo, Haijie Lee, Junyeop Min, Jeongki Lee, Bokyeung Park, Jaihyun Ko, Hanseok Tai, Lab Ying Jilin Li, Youtu Lab Liu, Shuai Yang, Biao Liu, Xing Chen, Shuaijun Zhao, Lei Wang, Zhan Lin, Yuxuan Jia, Xu Gao, Qinquan Deng, Wei Kheradmand, Amin El-Khamy, Mostafa Wang, Shuangquan Bai, Dongwoon Lee, Jungwon Patel, Heena Chudasama, Vishal Upla, Kishor Ramachandra, Raghavendra Raja, Kiran Busch, Christoph Meng, Zibo Ho, Chiu Man Computer Vision Lab ETH Zurich Switzerland LIX - Computer science laboratory at the cole polytechnique Palaiseau France Center of Multimedia Signal Processing Hong Kong Polytechnic University Hong Kong Shanghai Jiao Tong University China Microsoft Research Beijing China Guangdong University of Technology China Intelligent Signal Processing Laboratory Korea University Korea Republic of Ajou University Korea Republic of EPFL University of Udine Italy BOE Technology Group Co. Ltd Dalian Maritime University China Guangdong OPPO Mobile Telecommunications Corp. Ltd Department of Video Information Processing Korea University Korea Republic of School of Electrical Engineering Korea University Korea Republic of Tencent Youtu Lab Yun Cao Tencent Youtu Tencent Youtu Lab Chengjie Wang Tencent Tencent Youtu Lab Feiyue Huang Tencent Youtu Lab Peking University China North China University of Technology China Huawei Technologies Co. Ltd China Fuzhou University Tong Tong Fuzhou University Imperial Vision Technology China Fuzhou University Imperial Vision Technology China Imperial Vision Technology SOC R&D Samsung Semiconductor Inc. United States Ulsan national institute of science and technology Korea Republic of Sardar Vallabhbhai National Institute Of Technology Surat India Norwegian University of Science and Technology Gjøvik Norway InnoPeak Technology

This paper reviews the NTIRE 2020 challenge on real world super-resolution. It focuses on the participating methods and final results. The challenge addresses the real world setting, where paired true high and low-resolution images are unavailable. For training, only one set of source input images is therefore provided along with a set of unpaired high-quality target images. In Track 1: image processing artifacts, the aim is to super-resolve images with synthetically generated image processing artifacts. This allows for quantitative benchmarking of the approaches w.r.t. a ground-truth image. In Track 2: Smartphone images, real low-quality smart phone images have to be super-resolved. In both tracks, the ultimate goal is to achieve the best perceptual quality, evaluated using a human study. This is the second challenge on the subject, following AIM 2019, targeting to advance the state-of-the-art in super-resolution. To measure the performance we use the benchmark protocol from AIM 2019. In total 22 teams competed in the final testing phase, demonstrating new and innovative solutions to the problem. Copyright © 2020, The Authors. All rights reserved.

关键词： Optical resolving power

Deep learning methods for lung cancer segmentation in whole-slide histopathology images - The ACDC@lungHP challenge 2019

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arXiv 2020年

作者： Li, Zhang Zhang, Jiehua Tan, Tao Teng, Xichao Sun, Xiaoliang Li, Yang Liu, Lihong Xiao, Yang Lee, Byungjae Li, Yilong Zhang, Qianni Sun, Shujiao Zheng, Yushan Yan, Junyu Li, Ni Hong, Yiyu Ko, Junsu Jung, Hyun Liu, Yanling Chen, Yu-Cheng Wang, Ching-Wei Yurovskiy, Vladimir Maevskikh, Pavel Khanagha, Vahid Jiang, Yi Feng, Xiangjun Liu, Zhihong Li, Daiqiang Schüffler, Peter J. Yu, Qifeng Chen, Hui Tang, Yuling Litjens, Geert College of Aerospace Science and Engineering National University of Defense Technology Changsha410073 China Department of Mathematics and Computer Science Eindhoven University of Technology Netherlands and ScreenPoint Medical Eindhoven Nijmegen5600 MB Netherlands Pingan Technology Shenzhen China Lunit Inc. Seoul Korea Republic of School of Electrical Engineering and Computer Science Queen Mary University of London London United Kingdom Image Processing Center School of Astronautics Beihang University Beijing102206 China Beijing Advanced Innovation Center for Biomedical Engineering Beijing100191 China Beijing Advanced Innovation Center for Biomedical Engineering Beihang University Image Processing Center School of Astronautics Beihang University Beijing102206 China AstLab School of Automatationm Beihang University Beijing China Department of R&D Center Arontier Co. Ltd. Seoul Korea Republic of Frederick National Laboratory United States Center of Computer Vision and Medical Imaging Graduate Institute of Biomedical Engineering Graduate institute of Applied Science and Technology National Taiwan University of Science and Technology AI Explore Taipei Taiwan Research Department Sky-chain Global Yekaterinburg Russia Audio Solutions Team Motorola Solutions Inc. PlantationFL United States Second Xiangya Hospital Central South University Changsha China Hunan Biotechnology Ltd. Changsha China Hunan Cancer Hospital Central South University Changsha China Memorial Sloan Kettering Cancer Center United States First Hospital of Changsha City Changsha China Radboud University Medical Center Nijmegen Netherlands

Accurate segmentation of lung cancer in pathology slides is a critical step in improving patient care. We proposed the ACDC@LungHP (Automatic Cancer Detection and Classification in Whole-slide Lung Histopathology) challenge for evaluating different computer-aided diagnosis (CADs) methods on the automatic diagnosis of lung cancer. The ACDC@LungHP 2019 focused on segmentation (pixel-wise detection) of cancer tissue in whole slide imaging (WSI), using an annotated dataset of 150 training images and 50 test images from 200 patients. This paper reviews this challenge and summarizes the top 10 submitted methods for lung cancer segmentation. All methods were evaluated using the false positive rate, false negative rate, and DICE coefficient (DC). The DC ranged from 0.7354±0.1149 to 0.8372±0.0858. The DC of the best method was close to the inter-observer agreement (0.8398±0.0890). All methods were based on deep learning and categorized into two groups: multi-model method and single model method. In general, multi-model methods were significantly better (p Copyright © 2020, The Authors. All rights reserved.

关键词： Biological organs

BigNeuron: a resource to benchmark and predict performance of algorithms for automated tracing of neurons in light microscopy datasets

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Nature methods 2023年第6期20卷 824-835页

作者： Linus Manubens-Gil Zhi Zhou Hanbo Chen Arvind Ramanathan Xiaoxiao Liu Yufeng Liu Alessandro Bria Todd Gillette Zongcai Ruan Jian Yang Miroslav Radojević Ting Zhao Li Cheng Lei Qu Siqi Liu Kristofer E Bouchard Lin Gu Weidong Cai Shuiwang Ji Badrinath Roysam Ching-Wei Wang Hongchuan Yu Amos Sironi Daniel Maxim Iascone Jie Zhou Erhan Bas Eduardo Conde-Sousa Paulo Aguiar Xiang Li Yujie Li Sumit Nanda Yuan Wang Leila Muresan Pascal Fua Bing Ye Hai-Yan He Jochen F Staiger Manuel Peter Daniel N Cox Michel Simonneau Marcel Oberlaender Gregory Jefferis Kei Ito Paloma Gonzalez-Bellido Jinhyun Kim Edwin Rubel Hollis T Cline Hongkui Zeng Aljoscha Nern Ann-Shyn Chiang Jianhua Yao Jane Roskams Rick Livesey Janine Stevens Tianming Liu Chinh Dang Yike Guo Ning Zhong Georgia Tourassi Sean Hill Michael Hawrylycz Christof Koch Erik Meijering Giorgio A Ascoli Hanchuan Peng Institute for Brain and Intelligence Southeast University Nanjing China. Microsoft Corporation Redmond WA USA. Tencent AI Lab Bellevue WA USA. Computing Environment and Life Sciences Directorate Argonne National Laboratory Lemont IL USA. Kaya Medical Seattle WA USA. University of Cassino and Southern Lazio Cassino Italy. Center for Neural Informatics Structures and Plasticity Krasnow Institute for Advanced Study George Mason University Fairfax VA USA. Faculty of Information Technology Beijing University of Technology Beijing China. Beijing International Collaboration Base on Brain Informatics and Wisdom Services Beijing China. Nuctech Netherlands Rotterdam the Netherlands. Janelia Research Campus Howard Hughes Medical Institute Ashburn VA USA. Department of Electrical and Computer Engineering University of Alberta Edmonton Alberta Canada. Ministry of Education Key Laboratory of Intelligent Computation and Signal Processing Anhui University Hefei China. Paige AI New York NY USA. Scientific Data Division and Biological Systems and Engineering Division Lawrence Berkeley National Lab Berkeley CA USA. Helen Wills Neuroscience Institute and Redwood Center for Theoretical Neuroscience UC Berkeley Berkeley CA USA. RIKEN AIP Tokyo Japan. Research Center for Advanced Science and Technology (RCAST) The University of Tokyo Tokyo Japan. School of Computer Science University of Sydney Sydney New South Wales Australia. Texas A&M University College Station TX USA. Cullen College of Engineering University of Houston Houston TX USA. Graduate Institute of Biomedical Engineering National Taiwan University of Science and Technology Taipei Taiwan. National Centre for Computer Animation Bournemouth University Poole UK. PROPHESEE Paris France. Department of Neuroscience Columbia University New York NY USA. Mortimer B. Zuckerman Mind Brain Behavior Institute Columbia University New York NY USA. Department of Computer Science Northern Illinois Universit

BigNeuron is an open community bench-testing platform with the goal of setting open standards for accurate and fast automatic neuron tracing. We gathered a diverse set of image volumes across several species that is representative of the data obtained in many neuroscience laboratories interested in neuron tracing. Here, we report generated gold standard manual annotations for a subset of the available imaging datasets and quantified tracing quality for 35 automatic tracing algorithms. The goal of generating such a hand-curated diverse dataset is to advance the development of tracing algorithms and enable generalizable benchmarking. Together with image quality features, we pooled the data in an interactive web application that enables users and developers to perform principal component analysis, t-distributed stochastic neighbor embedding, correlation and clustering, visualization of imaging and tracing data, and benchmarking of automatic tracing algorithms in user-defined data subsets. The image quality metrics explain most of the variance in the data, followed by neuromorphological features related to neuron size. We observed that diverse algorithms can provide complementary information to obtain accurate results and developed a method to iteratively combine methods and generate consensus reconstructions. The consensus trees obtained provide estimates of the neuron structure ground truth that typically outperform single algorithms in noisy datasets. However, specific algorithms may outperform the consensus tree strategy in specific imaging conditions. Finally, to aid users in predicting the most accurate automatic tracing results without manual annotations for comparison, we used support vector machine regression to predict reconstruction quality given an image volume and a set of automatic tracings.

关键词：

Common Limitations of image processing Metrics: A Picture Story

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arXiv 2021年

作者： Reinke, Annika Tizabi, Minu D. Sudre, Carole H. Eisenmann, Matthias Rädsch, Tim Baumgartner, Michael Acion, Laura Antonelli, Michela Arbel, Tal Bakas, Spyridon Bankhead, Peter Benis, Arriel Blaschko, Matthew Buettner, Florian Cardoso, M. Jorge Chen, Jianxu Cheplygina, Veronika Christodoulou, Evangelia Cimini, Beth A. Collins, Gary S. Engelhardt, Sandy Farahani, Keyvan Ferrer, Luciana Galdran, Adrian van Ginneken, Bram Glocker, Ben Godau, Patrick Haase, Robert Hamprecht, Fred Hashimoto, Daniel A. Heckmann-Nötzel, Doreen Hirsch, Peter Hoffman, Michael M. Huisman, Merel Isensee, Fabian Jannin, Pierre Kahn, Charles E. Kainmueller, Dagmar Kainz, Bernhard Karargyris, Alexandros Karthikesalingam, Alan Kavur, A. Emre Kenngott, Hannes Kleesiek, Jens Kleppe, Andreas Koehler, Sven Kofler, Florian Kopp-Schneider, Annette Kooi, Thijs Kozubek, Michal Kreshuk, Anna Kurc, Tahsin Landman, Bennett A. Litjens, Geert Madani, Amin Maier-Hein, Klaus Martel, Anne L. Mattson, Peter Meijering, Erik Menze, Bjoern Moher, David Moons, Karel G.M. Müller, Henning Nichyporuk, Brennan Nickel, Felix Noyan, M. Alican Petersen, Jens Polat, Gorkem Rafelski, Susanne M. Rajpoot, Nasir Reyes, Mauricio Rieke, Nicola Riegler, Michael A. Rivaz, Hassan Saez-Rodriguez, Julio Sánchez, Clara I. Schroeter, Julien Saha, Anindo Selver, M. Alper Sharan, Lalith Shetty, Shravya Smeden, Maarten V.A.N. Stieltjes, Bram Summers, Ronald M. Taha, Abdel A. Tiulpin, Aleksei Tsaftaris, Sotirios A. Calster, Ben V.A.N. Varoquaux, Gaël Wiesenfarth, Manuel Yaniv, Ziv R. Jäger, Paul Maier-Hein, Lena Division of Intelligent Medical Systems and HI Helmholtz Imaging Heidelberg Germany Faculty of Mathematics and Computer Science Heidelberg University Heidelberg Germany Division of Intelligent Medical Systems Heidelberg Germany NCT Heidelberg DKFZ University Medical Center Heidelberg Germany MRC Unit for Lifelong Health and Ageing UCL Centre for Medical Image Computing Department of Computer Science University College London London United Kingdom School of Biomedical Engineering and Imaging Science King’s College London London United Kingdom Division of Medical Image Computing Heidelberg Germany Instituto de Cálculo CONICET – Universidad de Buenos Aires Buenos Aires Argentina Centre for Medical Image Computing University College London London United Kingdom McGill University Montréal Canada Division of Computational Pathology Dept of Pathology & Laboratory Medicine Indiana University School of Medicine IU Health Information and Translational Sciences Building Indianapolis United States University of Pennsylvania Richards Medical Research Laboratories FL7 PhiladelphiaPA United States Institute of Genetics and Cancer University of Edinburgh Edinburgh United Kingdom Department of Digital Medical Technologies Holon Institute of Technology Holon Israel European Federation for Medical Informatics Le Mont-sur-Lausanne Switzerland Center for Processing Speech and Images Department of Electrical Engineering KU Leuven Kasteelpark Arenberg 10 - box 2441 Leuven3001 Belgium Frankfurt/Mainz DKFZ UCT Frankfurt-Marburg Germany Heidelberg Germany Goethe University Frankfurt Department of Medicine Germany Goethe University Frankfurt Department of Informatics Germany Frankfurt Cancer Insititute Germany Leibniz-Institut für Analytische Wissenschaften – ISAS – e.V. Dortmund Germany Department of Computer Science IT University of Copenhagen Copenhagen Denmark Imaging Platform Broad Institute of MIT and Harvard CambridgeMA United States Centre for St

While the importance of automatic image analysis is continuously increasing, recent meta-research revealed major flaws with respect to algorithm validation. Performance metrics are particularly key for meaningful, objective, and transparent performance assessment and validation of the used automatic algorithms, but relatively little attention has been given to the practical pitfalls when using specific metrics for a given image analysis task. These are typically related to (1) the disregard of inherent metric properties, such as the behaviour in the presence of class imbalance or small target structures, (2) the disregard of inherent data set properties, such as the non-independence of the test cases, and (3) the disregard of the actual biomedical domain interest that the metrics should reflect. This living dynamically document has the purpose to illustrate important limitations of performance metrics commonly applied in the field of image analysis. In this context, it focuses on biomedical image analysis problems that can be phrased as image-level classification, semantic segmentation, instance segmentation, or object detection task. The current version is based on a Delphi process on metrics conducted by an international consortium of image analysis experts from more than 60 institutions worldwide. © 2021, CC BY.

关键词： Medical imaging

Detection of Fusarium wilt on Phalaenopsis stem base region using band selection techniques 38

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Detection of Fusarium wilt on Phalaenopsis stem base region ...

38th Annual IEEE International Geoscience and Remote Sensing Symposium, IGARSS 2018

作者： Lee, Meng-Chueh Ma, Kenneth-Yeonkong Ouyang, Yen-Chieh Ou-Yang, Mang Guo, Horng-Yuh Liu, Tsang-Sen Chen, Hsian-Min Wu, Chao-Cheng Chang, Chgein-I Department of Communications Engineering National Chung Hsing University Taichung Taiwan Department of Electrical Engineering National Chung Hsing University Taichung Taiwan National Chiao-Tung University Department of Electrical and Computer Engineering Hsinchu City Taiwan Taiwan Agriculture Research Institute Nan-Tou Taiwan Center for Quantitative Imaging in Medicine Taichung Veterans General Hospital Taichung Taiwan Department of Electrical Engineering National Taipei University of Technology Taipei Taiwan Remote Sensing Signal and Image Processing Laboratory Department of Computer Science and Electrical Engineering University of Maryland Baltimore County BaltimoreMD21250 United States

ISBN: (纸本)9781538671504

Phalaenopsis is a significant agriculture product with high economic value in Taiwan. However, the fusarium wilt causes Phalaenopsis leaves turning yellow, thinning, water loss, and finally died. This paper presents an emerging method to detect fusarium wilt on Phalaenopsis stem base. In order to build the detection models, the hyperspectral databases are generated form two statues of Phalaenopsis samples, which are health and disease sample. We applied band selection (BS) processing base on band prioritization (BP) and band de-correlation (BD) to extract the significant bands and eliminate the redundant bands. Then, three algorithms were used, orthogonal subspace projection (OSP), constrain energy minimization (CEM), and support vector machine (SVM) to detect the fusarium wilt. © 2018 IEEE

关键词： Diseases Hyperspectral imaging Support vector machines Agriculture Databases Entropy

GazeGAN: A robust generative adversarial saliency model based on invariance analysis of human gaze during scene free viewing

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arXiv 2019年

作者： Che, Zhaohui Borji, Ali Zhai, Guangtao Min, Xiongkuo Guo, Guodong Le Callet, Patrick Institute of Image Communication and Network Engineering Shanghai Key Laboratory of Digital Media Processing and Transmissions Shanghai Jiao Tong University Shanghai200240 China MarkableAI United States Institute of Deep Learning Baidu Research Department of Computer Science and Electrical Engineering West Virginia University MorgantownWV United States Equipe Image Perception et Interaction Laboratoire des Sciences du Numérique de Nantes Université de Nantes France

—Data size is the bottleneck for developing deep saliency models, because collecting eye-movement data is very time-consuming and expensive. Most of current studies on human attention and saliency modeling have used high-quality stereotype stimuli. In real world, however, captured images undergo various types of transformations. Can we use these transformations to augment existing saliency datasets? Here, we first create a novel saliency dataset including fixations of 10 observers over 1900 images degraded by 19 types of transformations. Second, by analyzing eye movements, we find that observers look at different locations over transformed versus original images. Third, we utilize the new data over transformed images, called data augmentation transformation (DAT), to train deep saliency models. We find that label-preserving DATs with negligible impact on human gaze boost saliency prediction, whereas some other DATs that severely impact human gaze degrade the performance. These label-preserving valid augmentation transformations provide a solution to enlarge existing saliency datasets. Finally, we introduce a novel saliency model based on generative adversarial network (dubbed GazeGAN). A modified U-Net is proposed as the generator of the GazeGAN, which combines classic "skip connections" with a novel "center-surround connection (CSC)", in order to leverage multi-level features. We also propose a histogram loss based on Alternative Chi-Square Distance (ACS HistLoss) to refine the saliency map in terms of luminance distribution. Extensive experiments and comparisons over 3 datasets indicate that GazeGAN achieves the best performance in terms of popular saliency evaluation metrics, and is more robust to various perturbations. We also provide a comprehensive quantitative comparison of 22 state-of-the-art saliency models on distorted images, which contributes a robustness benchmark for saliency community. Our code and data are available at: https://***/CZHQuality/

关键词： Luminance

The medical segmentation decathlon

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arXiv 2021年

作者： Antonelli, Michela Reinke, Annika Bakas, Spyridon Farahani, Keyvan Kopp-Schneider, Annette Landman, Bennett A. Litjens, Geert Menze, Bjoern Ronneberger, Olaf Summers, Ronald M. van Ginneken, Bram Bilello, Michel Bilic, Patrick Christ, Patrick F. Do, Richard K.G. Gollub, Marc J. Heckers, Stephan H. Huisman, Henkjan Jarnagin, William R. McHugo, Maureen K. Napel, Sandy Golia Pernicka, Jennifer S. Rhode, Kawal Tobon-Gomez, Catalina Vorontsov, Eugene Hulsmon, Hankan Meakin, James A. Ourselin, Sebastien Wiesenfarth, Manuel Arbeláez, Pablo Bae, Byeonguk Chen, Sihong Daza, Laura Feng, Jianjiang He, Baochun Isensee, Fabian Ji, Yuanfeng Jia, Fucang Kim, Namkug Kim, Ildoo Merhof, Dorit Pai, Akshay Park, Beomhee Perslev, Mathias Rezaiifar, Ramin Rippel, Oliver Sarasua, Ignacio Shen, Wei Son, Jaemin Wachinger, Christian Wang, Liansheng Wang, Yan Xia, Yingda Xu, Daguang Xu, Zhanwei Zheng, Yefeng Simpson, Amber L. Maier-Hein, Lena Cardoso, M. Jorge School of Biomedical Engineering & Imaging Sciences King’s College London London United Kingdom Heidelberg Germany Heidelberg Germany Faculty of Mathematics and Computer Science University of Heidelberg Heidelberg Germany University of Pennsylvania PhiladelphiaPA United States BethesdaMD United States Heidelberg Germany Electrical Engineering and Computer Science Vanderbilt University NashvilleTN United States Radboud University Medical Center Radboud Institute for Health Sciences Nijmegen Netherlands Quantitative Biomedicine University of Zurich Zurich Switzerland DeepMind London United Kingdom School of Computing Department of Biomedical and Molecular Sciences Queen’s University KingstonON Canada Department of Surgery Memorial Sloan Kettering Cancer Center New YorkNY United States BethesdaMD United States Department of Informatics Technische Universität München Germany Department of Radiology Memorial Sloan Kettering Cancer Center New YorkNY United States Department of Psychiatry & Behavioral Sciences Vanderbilt University Medical Center NashvilleTN United States Department of Radiology Stanford University StanfordCA United States Department of Computer Science and Software Engineering École Polytechnique de Montréal Department of Radiology Perelman School of Medicine University of Pennsylvania PhiladelphiaPA United States Department of Pathology and Laboratory Medicine Perelman School of Medicine University of Pennsylvania PhiladelphiaPA United States Medical Faculty University of Heidelberg Heidelberg Germany VUNO Inc. Seoul Korea Republic of Universidad de los Andes Colombia Department of Automation Tsinghua University Beijing China Heidelberg Germany Department of Computer Science Xiamen University Xiamen361005 China Shenzhen Institute of Advanced Technology Chinese Academy of Sciences Shenzhen China Kakao Brain Korea Republic of Institute of Imaging & Computer Vision RWTH Aachen University Aachen Germany Cere

International challenges have become the de facto standard for comparative assessment of image analysis algorithms given a specific task. Segmentation is so far the most widely investigated medical image processing task, but the various segmentation challenges have typically been organized in isolation, such that algorithm development was driven by the need to tackle a single specific clinical problem. We hypothesized that a method capable of performing well on multiple tasks will generalize well to a previously unseen task and potentially outperform a custom-designed solution. To investigate the hypothesis, we organized the Medical Segmentation Decathlon (MSD)—a biomedical image analysis challenge, in which algorithms compete in a multitude of both tasks and modalities. The underlying data set was designed to explore the axis of difficulties typically encountered when dealing with medical images, such as small data sets, unbalanced labels, multi-site data and small objects. The MSD challenge confirmed that algorithms with a consistent good performance on a set of tasks preserved their good average performance on a different set of previously unseen tasks. Moreover, by monitoring the MSD winner for two years, we found that this algorithm continued generalizing well to a wide range of other clinical problems, further confirming our hypothesis. Three main conclusions can be drawn from this study: (1) state-of-the-art image segmentation algorithms are mature, accurate, and generalize well when retrained on unseen tasks;(2) consistent algorithmic performance across multiple tasks is a strong surrogate of algorithmic generalizability;(3) the training of accurate AI segmentation models is now commoditized to non AI *** Codes 68T07. © 2021, CC BY-NC-SA.

关键词： image segmentation

Clustering analysis of multidimensional fuzzy sets using mathematical morphology

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Clustering analysis of multidimensional fuzzy sets using mat...

Neural and Fuzzy Systems: The Emerging Science of Intelligent Computing 1994

作者： Kher, Alok Mitra, Sunanda Computer Vision and Image Analysis Laboratory Department of Electrical Engineering Texas Tech University LubbockTX79409 United States

The tools of mathematical morphology originally developed for image analysis can be generalized for structural analysis of the general class of multidimensional fuzzy data sets. In this chapter we discuss morphological tools useful for clustering analysis of fuzzy sets. Morphological techniques can perform cluster segmentations that are stable with respect to relative scale changes of the axes of the multidimensional space. We briefly explain a few simple approaches to convert data sets from continuous spaces to discrete spaces where the morphological algorithms can be applied. Morphological filters can be designed to eliminate noise which can cause large clusters to split into smaller clusters. Connectivity preserving filters can play an important role in removing noise while preserving important features of the data set which may be vulnerable to filtering processes. Morphological tools can segment complex data sets such as those consisting of shell type of clusters. We have reviewed several morphological algorithms useful for clustering of binary and fuzzy data sets. © 2017 SPIE.

关键词： Mathematical morphology

Biomedical image analysis competitions: The state of current participation practice

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arXiv 2022年

作者： Eisenmann, Matthias Reinke, Annika Weru, Vivienn Tizabi, Minu Dietlinde Isensee, Fabian Adler, Tim J. Godau, Patrick Cheplygina, Veronika Kozubek, Michal Maier-Hein, Klaus Jäger, Paul F. Kopp-Schneider, Annette Maier-Hein, Lena Ali, Sharib Gupta, Anubha Kybic, Jan Noble, Alison de Solórzano, Carlos Ortiz Pachade, Samiksha Petitjean, Caroline Sage, Daniel Wei, Donglai Wilden, Elizabeth Alapatt, Deepak Andrearczyk, Vincent Baid, Ujjwal Bakas, Spyridon Balu, Niranjan Bano, Sophia Bawa, Vivek Singh Bernal, Jorge Bodenstedt, Sebastian Casella, Alessandro Choi, Jinwook Commowick, Olivier Daum, Marie Depeursinge, Adrien Dorent, Reuben Egger, Jan Eichhorn, Hannah Engelhardt, Sandy Ganz, Melanie Girard, Gabriel Hansen, Lasse Heinrich, Mattias Heller, Nicholas Hering, Alessa Huaulmé, Arnaud Kim, Hyunjeong Li, Hongwei Bran Landman, Bennett Li, Jianning Ma, Jun Martel, Anne Martín-Isla, Carlos Menze, Bjoern Nwoye, Chinedu Innocent Oreiller, Valentin Padoy, Nicolas Pati, Sarthak Payette, Kelly Sudre, Carole van Wijnen, Kimberlin Vardazaryan, Armine Vercauteren, Tom Wagner, Martin Wang, Chuanbo Yap, Moi Hoon Yu, Zeyun Yuan, Chun Zenk, Maximilian Zia, Aneeq Zimmerer, David Bao, Rina Choi, Chanyeol Cohen, Andrew Dzyubachyk, Oleh Galdran, Adrian Gan, Tianyuan Guo, Tianqi Gupta, Pradyumna Haithami, Mahmood Ho, Edward Jang, Ikbeom Li, Zhili Luo, Zhengbo Lux, Filip Makrogiannis, Sokratis Müller, Dominik Oh, Young-Tack Pang, Subeen Pape, Constantin Polat, Gorkem Reed, Charlotte Rosalie Ryu, Kanghyun Scherr, Tim Thambawita, Vajira Wang, Haoyu Wang, Xinliang Xu, Kele Yeh, Hung Yeo, Doyeob Yuan, Yixuan Zeng, Yan Zhao, Xin Abbing, Julian Adam, Jannes Adluru, Nagesh Agethen, Niklas Ahmed, Salman Al Khalil, Yasmina Alenyà, Mireia Alhoniemi, Esa An, Chengyang Arega, Tewodros Weldebirhan Avisdris, Netanell Aydogan, Dogu Baran Bai, Yingbin Calisto, Maria Baldeon Basaran, Berke Doga Beetz, Marcel Bian, Hao Blansit, Kevin Bloch, Louise Bohnsack, Robert Bosticardo, Sara Breen, Jack Brudfors, Mikael Brüngel, Raphael Cabezas, Mariano Cacciola, Alb Heidelberg Division of Intelligent Medical Systems Germany Heidelberg HI Helmholtz Imaging Germany Faculty of Mathematics and Computer Science Heidelberg University Heidelberg Germany Heidelberg Division of Biostatistics Germany Heidelberg Division of Medical Image Computing Germany Heidelberg HI Applied Vision Lab Germany IT University of Copenhagen Copenhagen Denmark Centre for Biomedical Image Analysis Masaryk University Brno Czech Republic Heidelberg Interactive Machine Learning Group Germany Faculty of Mathematics and Computer Science and Medical Faculty Heidelberg University Heidelberg Germany NCT Heidelberg DKFZ University Hospital Heidelberg Germany School of Computing University of Leeds Leeds United Kingdom SBILab Department of ECE IIIT-Delhi India Faculty of Electrical Engineering Czech Technical University Prague Czech Republic Institute of Biomedical Engineering University of Oxford United Kingdom Center for Applied Medical Research Pamplona Spain Shri Guru Gobind Singhji Institute of Engineering and Technology Maharashtra Nanded India Université de Rouen Normandie France Lausanne Switzerland School of Engineering and Applied Science Harvard University United States ICube University of Strasbourg CNRS France Institute of Informatics School of Management HES-SO Valais-Wallis University of Applied Sciences and Arts Western Switzerland Techno-Pôle 3 Sierre3960 Switzerland Department of Nuclear Medicine and Molecular Imaging Lausanne University Hospital Rue du Bugnon 46 LausanneCH-1011 Switzerland University of Pennsylvania PhiladelphiaPA United States Department of Radiology University of Washington United States Wellcome EPSRC Centre for Interventional and Surgical Sciences University College London London United Kingdom Visual Artificial Intelligence Lab Oxford Brookes University Oxford United Kingdom Universitat Autònoma de Barcelona & Computer Vision Center Spain Dresden Fetscherstraße 74 PF 64 Dresden01307 Germany

The number of international benchmarking competitions is steadily increasing in various fields of machine learning (ML) research and practice. So far, however, little is known about the common practice as well as bottlenecks faced by the community in tackling the research questions posed. To shed light on the status quo of algorithm development in the specific field of biomedical imaging analysis, we designed an international survey that was issued to all participants of challenges conducted in conjunction with the IEEE ISBI 2021 and MICCAI 2021 conferences (80 competitions in total). The survey covered participants' expertise and working environments, their chosen strategies, as well as algorithm characteristics. A median of 72% challenge participants took part in the survey. According to our results, knowledge exchange was the primary incentive (70%) for participation, while the reception of prize money played only a minor role (16%). While a median of 80 working hours was spent on method development, a large portion of participants stated that they did not have enough time for method development (32%). 25% perceived the infrastructure to be a bottleneck. Overall, 94% of all solutions were deep learning-based. Of these, 84% were based on standard architectures. 43% of the respondents reported that the data samples (e.g., images) were too large to be processed at once. This was most commonly addressed by patch-based training (69%), downsampling (37%), and solving 3D analysis tasks as a series of 2D tasks. K-fold cross-validation on the training set was performed by only 37% of the participants and only 50% of the participants performed ensembling based on multiple identical models (61%) or heterogeneous models (39%). 48% of the respondents applied postprocessing steps. © 2022, CC BY.

关键词： Benchmarking