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Understanding metric-related pitfalls in image analysis validation

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arXiv 2023年

作者： Reinke, Annika Tizabi, Minu D. Baumgartner, Michael Eisenmann, Matthias Heckmann-Nötzel, Doreen Kavur, A. Emre Rädsch, Tim Sudre, Carole H. Acion, Laura Antonelli, Michela Arbel, Tal Bakas, Spyridon Benis, Arriel Blaschko, Matthew B. Buettner, Florian Cardoso, M. Jorge Cheplygina, Veronika Chen, Jianxu Christodoulou, Evangelia Cimini, Beth A. Collins, Gary S. Farahani, Keyvan Ferrer, Luciana Galdran, Adrian van Ginneken, Bram Glocker, Ben Godau, Patrick Haase, Robert Hashimoto, Daniel A. Hoffman, Michael M. Huisman, Merel Isensee, Fabian Jannin, Pierre Kahn, Charles E. Kainmueller, Dagmar Kainz, Bernhard Karargyris, Alexandros Karthikesalingam, Alan Kenngott, Hannes Kleesiek, Jens Kofler, Florian Kooi, Thijs Kopp-Schneider, Annette 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 Moons, Karel G.M. Müller, Henning Nichyporuk, Brennan Nickel, Felix Petersen, Jens Rafelski, Susanne M. Rajpoot, Nasir Reyes, Mauricio Riegler, Michael A. Rieke, Nicola Saez-Rodriguez, Julio Sánchez, Clara I. Shetty, Shravya Summers, Ronald M. Taha, Abdel A. Tiulpin, Aleksei Tsaftaris, Sotirios A. van Calster, Ben Varoquaux, Gaël Yaniv, Ziv R. Jäger, Paul F. Maier-Hein, Lena Faculty of Mathematics and Computer Science Heidelberg University Heidelberg Germany Heidelberg Division of Intelligent Medical Systems Germany NCT Heidelberg A Partnership Between DKFZ University Medical Center Heidelberg Germany Heidelberg Division of Medical Image Computing Germany Heidelberg Division of Intelligent Medical Systems 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 Instituto de Cálculo CONICET – Universidad de Buenos Aires Buenos Aires Argentina Centre for Medical Image Computing University College London London United Kingdom McGill University Montreal 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 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 Leuven Belgium partner site Frankfurt/Mainz a partnership between DKFZ and UCT Frankfurt Marburg Germany Heidelberg Germany Goethe University Frankfurt Department of Medicine Germany Goethe University Frankfurt Department of Informatics Germany and Frankfurt Cancer Insititute Germany Department of Computer Science IT University of Copenhagen Copenhagen Denmark Leibniz-Institut für Analytische Wissenschaften – ISAS – e.V. Dortmund Germany Imaging Platform Broad Institute of MIT and Harvard CambridgeMA United States Centre for Statistics in Medicine University of Oxford Oxford United Kingdom Center for Biomedical In

Validation metrics are key for tracking scientific progress and bridging the current chasm between artificial intelligence (AI) research and its translation into practice. However, increasing evidence shows that particularly in image analysis, metrics are often chosen inadequately. While taking into account the individual strengths, weaknesses, and limitations of validation metrics is a critical prerequisite to making educated choices, the relevant knowledge is currently scattered and poorly accessible to individual researchers. Based on a multi-stage Delphi process conducted by a multidisciplinary expert consortium as well as extensive community feedback, the present work provides the first reliable and comprehensive common point of access to information on pitfalls related to validation metrics in image analysis. While focused on biomedical image analysis, the addressed pitfalls generalize across application domains and are categorized according to a newly created, domain-agnostic taxonomy. The work serves to enhance global comprehension of a key topic in image analysis validation. © 2023, CC BY.

关键词： Computer vision

REFUGE2 CHALLENGE: A TREASURE TROVE FOR MULTI-DIMENSION ANALYSIS AND EVALUATION IN GLAUCOMA SCREENING

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arXiv 2022年

作者： Fang, Huihui Li, Fei Wu, Junde Fu, Huazhu Sun, Xu Son, Jaemin Yu, Shuang Zhang, Menglu Yuan, Chenglang Bian, Cheng Lei, Baiying Zhao, Benjian Xu, Xinxing Li, Shaohua Fumero, Francisco Sigut, José Almubarak, Haidar Bazi, Yakoub Guo, Yuanhao Zhou, Yating Baid, Ujjwal Innani, Shubham Guo, Tianjiao Yang, Jie Orlando, José Ignacio Bogunović, Hrvoje Zhang, Xiulan Xu, Yanwu The REFUGE2 Challenge Australia State Key Laboratory of Ophthalmology Zhongshan Ophthalmic Center Sun Yat-Sen University Guangdong Provincial Key Laboratory of Ophthalmology and Visual Science Guangzhou China Intelligent Healthcare Unit Baidu Inc. Beijing China The Institute of High Performance Computing Agency for Science Technology and Research Singapore Yatiris Group PLADEMA Institute CONICET UNICEN Tandil Argentina Christian Doppler Lab for Artificial Intelligence in Retina Department of Ophthalmology and Optometry Medical University of Vienna Vienna Austria VUNO Inc Seoul Korea Republic of Tencent HealthCare Tencent Shenzhen China Computer Vision Institute College of Computer Science and Software Engineering of Shenzhen University Shenzhen China School of Biomedical Engineering Health Science Center Shenzhen University China Xiaohe Healthcare ByteDance Guangdong Guangzhou510000 China School of Biomedical Engineering Shenzhen University China College of Computer Science & Software Engineering Shenzhen University China Department of Computer Science and Systems Engineering Universidad de La Laguna Spain Saudi Electronic University Saudi Arabia King Saud University Saudi Arabia Institute of Automation Chinese Academy of Sciences Beijing China University of Chinese Academy of Sciences Beijing China SGGS Institute of Engineering and Technology India Institute of Medical Robotics Shanghai Jiao Tong University China Institute of Image Processing and Pattern Recognition Shanghai Jiao Tong University China

With the rapid development of artificial intelligence (AI) in medical image processing, deep learning in color fundus photography (CFP) analysis is also evolving. Although there are some open-source, labeled datasets of CFPs in the ophthalmology community, large-scale datasets for screening only have labels of disease categories, and datasets with annotations of fundus structures are usually small in size. In addition, labeling standards are not uniform across datasets, and there is no clear information on the acquisition device. Here we release a multi-annotation, multi-quality, and multi-device color fundus image dataset for glaucoma analysis on an original challenge-Retinal Fundus Glaucoma Challenge 2nd Edition (REFUGE2). The REFUGE2 dataset contains 2000 color fundus images with annotations of glaucoma classification, optic disc/cup segmentation, as well as fovea localization. Meanwhile, the REFUGE2 challenge sets three sub-tasks of automatic glaucoma diagnosis and fundus structure analysis and provides an online evaluation framework. Based on the characteristics of multi-device and multi-quality data, some methods with strong generalizations are provided in the challenge to make the predictions more robust. This shows that REFUGE2 brings attention to the characteristics of real-world multi-domain data, bridging the gap between scientific research and clinical application. © 2022, CC BY-NC-ND.

关键词： Color

Static human behavior classification based on LLC features and GIST features 7

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Static human behavior classification based on LLC features a...

7th IEEE Annual International Conference on CYBER Technology in Automation, Control, and Intelligent Systems, CYBER 2017

作者： Ende, Wang Xukui, Hou Xuepeng, Li Shenyang Institute of Automation Chinese Academic of Sciences Key Lab of Image Understanding and Computer Vision Key Laboratory of Optical Electrical Image Processing Shenhe District Shenyang Liaoning China

ISBN: (纸本)9781538604892

This paper presents a method for recognizing human behavior in static images based on LLC and GIST features. The feature points in the image is densely located in sub-region of images and we extract SIFT feature from each sub-region. Then using the LLC method to encode the extracted dense SIFT features of each sub-region and each feature point descriptor is assigned to several nearest words, so that each descriptor can be expressed by the linear correlation coefficient of vocabulary. In order to increase the spatial information, we use the SPM model to divide the image into many blocks under different levels. We can get the pooled feature from each sub-region using the max pooling method. Then these pooled features from sub-region are concatenated and normalized as the final pooled features. In order to get GIST features, we divide the image into blocks and construct the Gabor filter group of 32 different scales and directions. Then each Gabor filter in the Gabor filter group does convolution operation with image blocks and we take the mean value of each blocks under each Gabor filter as the feature description. The features from each block under each Gabor filter are concatenated and normalized as the final GIST feature representation of the image. Then concatenating the final pooled features and the GIST features and take as the final feature representation. Finally, the intersection kernel function of SVM is used for classification. We performed experiments on several databases. By contrast, this algorithm has a good effect in accuracy and efficiency. © 2017 IEEE.

关键词： Gabor filters

A directional-progressive search method for infrared small target detection 3

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A directional-progressive search method for infrared small t...

3rd Optoelectronics Global Conference, OGC 2018

作者： Zhang, Xiangyue Ding, Qinghai Luo, Haibo Hui, Bin Chang, Zheng Zhang, Junchao Shenyang Institute of Automation Chinese Academy of Sciences Shenyang110016 China University of Chinese Academy of Sciences Beijing100049 China Key Laboratory of Opto-Electronic Information Processing CAS Shenyang110016 China Key Lab of Image Understanding and Computer Vision Liaoning Province Shenyang110016 China Space Star Technology Co. Ltd Beijing100086 China

ISBN: (纸本)9781538673973

Infrared small target detection plays a key role in infrared precision guidance and infrared early-warning system. It has been a difficult problem for researchers to study on how to detect targets accurately at a long distance as early as possible. Most of the existing algorithms can detect small targets in simple backgrounds, but they would fail on the detection when the background clutters are chaotic and the signal to clutter ratio (SCR) is low. Therefore, we propose a new infrared small target detection method which called a directional-progressive search (DPS) method. Our method derives from a fact that a small target is an isotropic Gaussian distribution at a long distance, while clutters show different characteristics in different directions. Based on this difference, we decompose the original image into first-order sub-images with different directions by using a first-order directional derivative (FODD) filter. Then zero-crossing points are detected in each direction step by step to distinguish small targets and background clutters. After screening progressively, the positions where existing zero-crossing points in every sub-image can be confirmed as targets. Experimental results show that our method acquires higher detection rates and lower false alarm rates compared with other methods. At the same time, our method can still keep better performance under various complex backgrounds. The robustness of our method is strong. © 2018 IEEE.

关键词： Clutter (information theory)

Metrics Reloaded: Recommendations for image analysis validation

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arXiv 2022年

作者： Maier-Hein, Lena Reinke, Annika Godau, Patrick Tizabi, Minu D. Buettner, Florian Christodoulou, Evangelia Glocker, Ben Isensee, Fabian Kleesiek, Jens Kozubek, Michal Reyes, Mauricio Riegler, Michael A. Wiesenfarth, Manuel Emre Kavur, A. Sudre, Carole H. Baumgartner, Michael Eisenmann, Matthias Heckmann-Nötzel, Doreen Rädsch, Tim Acion, Laura Antonelli, Michela Arbel, Tal Bakas, Spyridon Benis, Arriel Blaschko, Matthew B. Jorge Cardoso, M. Cheplygina, Veronika Cimini, Beth A. Collins, Gary S. Farahani, Keyvan Ferrer, Luciana Galdran, Adrian Ginneken, Bram Van Haase, Robert Hashimoto, Daniel A. Hoffman, Michael M. Huisman, Merel Jannin, Pierre Kahn, Charles E. Kainmueller, Dagmar Kainz, Bernhard Karargyris, Alexandros Karthikesalingam, Alan Kenngott, Hannes Kofler, Florian Kopp-Schneider, Annette Kreshuk, Anna Kurc, Tahsin Landman, Bennett A. Litjens, Geert Madani, Amin Maier-Hein, Klaus Martel, Anne L. Mattson, Peter Meijering, Erik Menze, Bjoern Moons, Karel G.M. Müller, Henning Nichyporuk, Brennan Nickel, Felix Petersen, Jens Rajpoot, Nasir Rieke, Nicola Saez-Rodriguez, Julio Sánchez, Clara I. Shetty, Shravya Smeden, Maarten Van Summers, Ronald M. Taha, Abdel A. Tiulpin, Aleksei Tsaftaris, Sotirios A. Calster, Ben Van Varoquaux, Gaël Jäger, Paul F. Heidelberg Division of Intelligent Medical Systems and HI Helmholtz Imaging Germany Faculty of Mathematics and Computer Science and Medical Faculty Heidelberg University Heidelberg Germany NCT Heidelberg a partnership between DKFZ University Medical Center Heidelberg Germany Faculty of Mathematics and Computer Science Heidelberg University Heidelberg Germany Heidelberg Division of Intelligent Medical Systems Germany partner site Frankfurt/Mainz a partnership between DKFZ and UCT Frankfurt-Marburg Germany Heidelberg Goethe University Frankfurt Germany Department of Medicine Goethe University Frankfurt Germany Department of Informatics Frankfurt Cancer Insititute Germany Department of Computing Imperial College London London United Kingdom Heidelberg Division of Medical Image Computing and HI Applied Computer Vision Lab Germany Institute for AI in Medicine University Medicine Essen Essen Germany Centre for Biomedical Image Analysis Faculty of Informatics Masaryk University Brno Czech Republic ARTORG Center for Biomedical Engineering Research University of Bern Bern Switzerland Department of Radiation Oncology University Hospital Bern University of Bern Bern Switzerland Simula Metropolitan Center for Digital Engineering Oslo Norway UiT The Arctic University of Norway Romsø Norway Heidelberg Division of Biostatistics Germany Heidelberg Division of Intelligent Medical Systems Division of Medical Image Computing HI Applied Computer Vision Lab 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 Heidelberg Division of Medical Image Computing 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

Increasing evidence shows that flaws in machine learning (ML) algorithm validation are an underestimated global problem. Particularly in automatic biomedical image analysis, chosen performance metrics often do not reflect the domain interest, thus failing to adequately measure scientific progress and hindering translation of ML techniques into practice. To overcome this, we created Metrics Reloaded, a comprehensive framework guiding researchers in the problem-aware selection of metrics. It was developed by a large international consortium in a multi-stage Delphi process and is based on the novel concept of a problem fingerprint – a structured representation of the given problem that captures all aspects that are relevant for metric selection, from the domain interest to the properties of the target structure(s), data set and algorithm output. Based on the problem fingerprint, users are guided through the process of choosing and applying appropriate validation metrics while being made aware of potential pitfalls. Metrics Reloaded targets image analysis problems that can be interpreted as a classification task at image, object or pixel level, namely image-level classification, object detection, semantic segmentation, and instance segmentation tasks. To improve the user experience, we implemented the framework in the Metrics Reloaded online tool. Following the convergence of ML methodology across application domains, Metrics Reloaded fosters the convergence of validation methodology. Its applicability is demonstrated for various biomedical use cases. © 2022, CC BY.

关键词： Semantic Segmentation

Millimeter-wave radar image analysis for the traffic sensing

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Journal of Physics: Conference Series 2020年第5期1507卷

作者： H M Wu F Qi J K Wang Y Wang School of communication science and engineering Northeastern University Liaoning Province Shenyang 110819 China Shenyang Institute of Automation Chinese Academy of Sciences China Institutes for Robotics and Intelligent Manufacturing Chinese Academy of Sciences China Key Laboratory of Opto-Electronic Information Processing Chinese Academy of Sciences China Key Lab of Image Understanding and Computer Vision Liaoning Province Shenyang 110016 China

Millimeter-wave(MMW) radar sensing is one of the most promising technologies to provide safe navigation for autonomous vehicles due to its expected high-resolution imaging capability However, driverless cars have higher request for different environment and light conditions. Therefore, millimetre-wave imaging is of paramount importance for complex load scenario. In this paper, we have built models of pavement pits and bulges and analysed their with differences ways of antennas. A comparison of the imaging performance of experimental systems operating at a MMW radar and a Lidar is presented with the analysis of features for initial image interpretation Experimental images of the complex road surface are made by a 94GHz frequency-modulated continuous-wave (FMCW) radar technique with 3mm wavelength.

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Improving maximal safe brain tumor resection with photoacoustic remote sensing microscopy

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arXiv 2020年

作者： Ecclestone, Benjamin R. Bell, Kevan Abbasi, Saad Dinakaran, Deepak van Landeghem, Frank K.H. Mackey, John R. Fieguth, Paul Reza, Parsin Haji PhotoMedicine Labs Department of System Design Engineering University of Waterloo 200 University Ave W WaterlooONN2L 3G1 Canada IllumiSonics Inc Department of System Design Engineering University of Waterloo 200 University Ave W WaterlooONN2L 3G1 Canada Vision and Image Processing Lab Department of System Design Engineering University of Waterloo 200 University Ave W WaterlooONN2L 3G1 Canada Department of Laboratory Medicine and Pathology University of Alberta 116 St & 85 Ave EdmontonABT6G 2B7 Canada Cross Cancer Institute Department of Oncology University of Alberta 116 St & 85 Ave EdmontonABT6G 2V1 Canada

Malignant brain tumors are among the deadliest neoplasms with the lowest survival rates of any cancer type. In considering surgical tumor resection, suboptimal extent of resection is linked to poor clinical outcomes and lower overall survival rates. Currently available tools for intraoperative histopathological assessment require an average of 20 minutes processing and are of limited diagnostic quality for guiding surgeries. Consequently, there is an unaddressed need for a rapid imaging technique to guide maximal resection of brain tumors. Working towards this goal, presented here is an all optical non-contact label-free reflection mode photoacoustic remote sensing (PARS) microscope. By using a tunable excitation laser, PARS takes advantage of the endogenous optical absorption peaks of DNA and cytoplasm to achieve virtual contrast analogous to standard hematoxylin and eosin (H&E) staining. In conjunction, a fast 266 nm excitation is used to generate large grossing scans and rapidly assess small fields in real-time with hematoxylin-like contrast. images obtained using this technique show comparable quality and contrast to the current standard for histopathological assessment of brain tissues. Using the proposed method, rapid, high-throughput, histological-like imaging was achieved in unstained brain tissues, indicating PARS’ utility for intraoperative guidance to improve extent of surgical resection. Copyright © 2020, The Authors. All rights reserved.

关键词： Brain

Thermal image Enhancement Algorithm Using Local And Global Logarithmic Transform Histogram Matching With Spatial Equalization

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Thermal Image Enhancement Algorithm Using Local And Global L...

IEEE Southwest Symposium on image Analysis and Interpretation

作者： Viacheslav Voronin Svetlana Tokareva Evgenii Semenishchev Sos Agaian Lab. "Mathematical methods of image processing and intelligent computer vision systems" Don State Technical University Rostov-on-Don Russian Federation Dept. of Computer Science CUNY/The College of Staten Island Staten Island New York United States

This paper presents a new thermal image enhancement algorithm based on combined local and global image processing in the frequency domain. The presented approach uses the fact that the relationship between stimulus and perception is logarithmic. The basic idea is to apply logarithmic transform histogram matching with spatial equalization approach on different image blocks. The resulting image is a weighted mean of all processing blocks. The weights for every local and global enhanced image driven through optimization of measure of enhancement (EME). Some presented experimental results illustrate the performance of the proposed algorithm on real thermal images in comparison with the traditional methods.

关键词： Histograms Transforms image enhancement Adaptive equalizers Frequency-domain analysis Computer vision

A Novel LOS Rate Estimation Method Based on images for Strap-down Inertial Guidance

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Journal of Physics: Conference Series 2020年第1期1570卷

作者： Zheng Xu Haibo Luo Bin Hui Zheng Chang Shenyang Institute of Automation Chinese Academy of Sciences Shenyang 110016 China Tel.: +86-024-2397-0757 Institutes for Robotics and Intelligent Manufacturing Chinese Academy of Sciences Shenyang 110016 China University of Chinese Academy of Sciences Beijing 100049 China Key Laboratory of Opto-Electronic Information Processing Chinese Academy of Science Shenyang 110016 China The Key Lab of Image Understanding and Computer Vision Shenyang 110016 China

With the development of technology, precision guided weapon is becoming more and more important in modern war. In order to launch our recent guidance system on medium and small guided weapons, we propose a method to obtain the LOS rate by combining information from both camera and gyroscope. To be specific, we firstly calculate the body LOS angle through transforming the image pixel coordinate system into the image physical coordinate system according to camera internal parameters; then subtract the missile motion information contained in the measurement signal of the seeker and finally the LOS rate is deduced. Comparing with traditional gimballed seekers, our strap-down seekers with camera have significantly reduced costs and influences caused by external environments on platform.

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