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arXiv 2021年

作者： Poh, Norman Bourlai, Thirimachos Kittler, Josef Allano, Lorene Alonso-Fernandez, Fernando Ambekar, Onkar Baker, John Dorizzi, Bernadette Fatukasi, Omolara Fierrez, Julian Ganster, Harald Ortega-Garcia, Javier Maurer, Donald Salah, Albert Ali Scheidat, Tobias Vielhauer, Claus Centre for Vision Speech and Signal Processing School of Electronics and Physical Sciences University of Surrey Guildford SurreyGU2 7XH United Kingdom Biometrics Center Lane Department of Computer Science and Electrical Engineering College of Engineering and Mineral Resources West Virginia University MorgantownWV26506-6109 United States Institut Telecom Telecom and Management SudParis Evry91011 France Biometric Recognition Group – ATVS Escuela Politecnica Superior Universidad Autonoma de Madrid Madrid28049 Spain Amsterdam1098 XG Netherlands Applied Physics Laboratory Johns Hopkins University LaurelMD20723 United States Electronics and Physics Department Institut Telecom Telecom and Management SudParis Evry91011 France Institute of Digital Image Processing Joanneum Research Graz8010 Austria ISLA-ISIS University of Amsterdam Amsterdam1098 XG Netherlands Department of Informatics and Media Brandenburg University of Applied Sciences Brandenburg an der HavelD-14770 Germany Research Group Multimedia and Security Department of Technical and Business Information Systems Faculty of Computer Science Otto-von-Guericke-University of Magdeburg MagdeburgD-39106 Germany

Automatically verifying the identity of a person by means of biometrics (e.g., face and fingerprint) is an important application in our day-to-day activities such as accessing banking services and security control in airports. To increase the system reliability, several biometric devices are often used. Such a combined system is known as a multimodal biometric system. This paper reports a benchmarking study carried out within the framework of the BioSecure DS2 (Access Control) evaluation campaign organized by the University of Surrey, involving face, fingerprint, and iris biometrics for person authentication, targeting the application of physical access control in a medium-size establishment with some 500 persons. While multimodal biometrics is a well-investigated subject in the literature, there exists no benchmark for a fusion algorithm comparison. Working towards this goal, we designed two sets of experiments: quality-dependent and cost-sensitive evaluation. The quality-dependent evaluation aims at assessing how well fusion algorithms can perform under changing quality of raw biometric images principally due to change of devices. The cost-sensitive evaluation, on the other hand, investigates how well a fusion algorithm can perform given restricted computation and in the presence of software and hardware failures, resulting in errors such as failure-to-acquire and failure-to-match. Since multiple capturing devices are available, a fusion algorithm should be able to handle this nonideal but nevertheless realistic scenario. In both evaluations, each fusion algorithm is provided with scores from each biometric comparison subsystem as well as the quality measures of both the template and the query data. The response to the call of the evaluation campaign proved very encouraging, with the submission of 22 fusion systems. To the best of our knowledge, this campaign is the first attempt to benchmark quality-based multimodal fusion algorithms. In the presence of changing

关键词： Benchmarking

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Correction to: Path-based estimation for link prediction

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International Journal of Machine Learning and Cybernetics 2021年第9期12卷 2459-2459页

作者： Ma, Guoshuai Yan, Hongren Qian, Yuhua Wang, Lingfeng Dang, Chuangyin Zhao, Zhongying Institute of Big Data Science and Industry Shanxi University Taiyuan China School of Computer and Information Technology Shanxi University Taiyuan China Key Laboratory of Computational Intelligence and Chinese Information Processing of Ministry of Education Shanxi University Taiyuan China Department of Electrical Engineering and Computer Science University of Wisconsin-Milwaukee Milwaukee USA Department of Manufacture Engineering and Engineering Management City University of Hong Kong Kowloon Tong Hong Kong The School of Computer Science and Engineering Shandong University of Science and Technology Qingdao China

A correction to this paper has been published: https://***/10.1007/s13042-021-01350-4

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Understanding metric-related pitfalls in image analysis validation

arXiv

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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

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Ai driven heterogeneous MEC system for dynamic environment - Challenges and solutions

arXiv

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arXiv 2020年

作者： Jiang, Feibo Wang, Kezhi Dong, Li Pan, Cunhua Xu, Wei Yang, Kun Hunan Provincial Key Laboratory of Intelligent Computing and Language Information Processing Hunan Normal University Changsha China department of Computer and Information Sciences Northumbria University United Kingdom Key Laboratory of Hunan Province for New Retail Virtual Reality Technology Hunan University of Commerce Changsha China School of Electronic Engineering and Computer Science Queen Mary University of London LondonE1 4NS United Kingdom NCRL Southeast University Nanjing China School of Computer Sciences and Electrical Engineering University of Essex ColchesterCO4 3SQ United Kingdom University of Electronic Science and Technology of China Chengdu China

—By taking full advantage of Computing, Communication and Caching (3C) resources at the network edge, Mobile Edge Computing (MEC) is envisioned as one of the key enablers for the next generation network and services. However, current fixed-location MEC architecture may not be able to make real-time decision in dynamic environment, especially in large-scale scenarios. To address this issue, in this paper, a Heterogeneous MEC (H-MEC) architecture is proposed, which is composed of fixed unit, i.e., Ground Stations (GSs) as well as moving nodes, i.e., Ground Vehicles (GVs) and Unmanned Aerial Vehicles (UAVs), all with 3C resource enabled. The key challenges in H-MEC, e.g., mobile edge node management, real-time decision making, user association and resource allocation along with the possible Artificial Intelligence (AI)-based solutions are discussed in this paper. In addition, an AI-based joint Resource schEduling (ARE) framework is proposed, with simulation results shown to verify the efficiency of our proposed framework. Copyright © 2020, The Authors. All rights reserved.

关键词： Deep neural networks

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Why is the Winner the Best?

Why is the Winner the Best?

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Conference on computer Vision and Pattern Recognition (CVPR)

作者： M. Eisenmann A. Reinke V. Weru M. D. Tizabi F. Isensee T. J. Adler S. Ali V. Andrearczyk M. Aubreville U. Baid S. Bakas N. Balu S. Bano J. Bernal S. Bodenstedt A. Casella V. Cheplygina M. Daum M. De Bruijne A. Depeursinge R. Dorent J. Egger D. G. Ellis S. Engelhardt M. Ganz N. Ghatwary G. Girard P. Godau A. Gupta L. Hansen K. Harada M. Heinrich N. Heller A. Hering A. Huaulmé P. Jannin A. E. Kavur O. Kodym M. Kozubek J. Li H. Li J. Ma C. Martín-Isla B. Menze A. Noble V. Oreiller N. Padoy S. Pati K. Payette T. Rädsch J. Rafael-Patiño V. Singh Bawa S. Speidel C. H. Sudre K. Van Wijnen M. Wagner D. Wei A. Yamlahi M. H. Yap C. Yuan M. Zenk A. Zia D. Zimmerer D. Aydogan B. Bhattarai L. Bloch R. Brüngel J. Cho C. Choi Q. Dou I. Ezhov C. M. Friedrich C. Fuller R. R. Gaire A. Galdran Á. García Faura M. Grammatikopoulou S. Hong M. Jahanifar I. Jang A. Kadkhodamohammadi I. Kang F. Kofler S. Kondo H. Kuijf M. Li M. Luu T. Martinčič P. Morais M. A. Naser B. Oliveira D. Owen S. Pang J. Park S. Park S. Płotka E. Puybareau N. Rajpoot K. Ryu N. Saeed A. Shephard P. Shi D. Štepec R. Subedi G. Tochon H. R. Torres H. Urien J. L. Vilaça K. A. Wahid H. Wang J. Wang L. Wang X. Wang B. Wiestler M. Wodzinski F. Xia J. Xie Z. Xiong S. Yang Y. Yang Z. Zhao K. Maier-Hein P. F. Jäger A. Kopp-Schneider L. Maier-Hein Division of Intelligent Medical Systems German Cancer Research Center (DKFZ) Heidelberg Germany Helmholtz Imaging German Cancer Research Center (DKFZ) Heidelberg Germany Faculty of Mathematics and Computer Science Heidelberg University Heidelberg Germany Division of Biostatistics German Cancer Research Center (DKFZ) Heidelberg Germany Division of Medical Image Computing German Cancer Research Center (DKFZ) Heidelberg Germany Faculty of Engineering and Physical Sciences School of Computing University of Leeds Leeds UK Institute of Informatics School of Management HES-SO Valais-Wallis University of Applied Sciences and Arts Western Switzerland Sierre Switzerland Department of Nuclear Medicine and Molecular Imaging Lausanne University Hospital Lausanne Switzerland Technische Hochschule Ingolstadt Ingolstadt Germany Center for Artificial Intelligence and Data Science for Integrated Diagnostics (AI2D) and Center for Biomedical Image Computing and Analytics (CBICA) University of Pennsylvania Philadelphia PA USA Department of Pathology and Laboratory Medicine Perelman School of Medicine University of Pennsylvania Philadelphia PA USA Department of Radiology Perelman School of Medicine University of Pennsylvania Philadelphia PA USA Department of Radiology University of Washington Seattle WA USA Department of Computer Science Wellcome/EPSRC Centre for Interventional and Surgical Sciences (WEISS) University College London London UK Universitat Autònoma de Barcelona & Computer Vision Center Barcelona Spain Division of Translational Surgical Oncology National Center for Tumor Diseases (NCT/UCC) Dresden Dresden Germany Department of Advanced Robotics Istituto Italiano di Tecnologia Italy Department of Electronics Information and Bioengineering Politecnico di Milano Milan Italy IT University of Copenhagen Copenhagen Denmark Department of General Visceral and Transplantation Surgery Heidelberg University Hospital Heidelberg Germany Department of Radiology and Nuc

International benchmarking competitions have become fundamental for the comparative performance assessment of image analysis methods. However, little attention has been given to investigating what can be learnt from these competitions. Do they really generate scientific progress? What are common and successful participation strategies? What makes a solution superior to a competing method? To address this gap in the literature, we performed a multicenter study with all 80 competitions that were conducted in the scope of IEEE ISBI 2021 and MICCAI 2021. Statistical analyses performed based on comprehensive descriptions of the submitted algorithms linked to their rank as well as the underlying participation strategies revealed common characteristics of winning solutions. These typically include the use of multi-task learning (63%) and/or multi-stage pipelines (61%), and a focus on augmentation (100%), image preprocessing (97%), data curation (79%), and post-processing (66%). The “typical” lead of a winning team is a computer scientist with a doctoral degree, five years of experience in biomedical image analysis, and four years of experience in deep learning. Two core general development strategies stood out for highly-ranked teams: the reflection of the metrics in the method design and the focus on analyzing and handling failure cases. According to the organizers, 43% of the winning algorithms exceeded the state of the art but only 11% completely solved the respective domain problem. The insights of our study could help researchers (1) improve algorithm development strategies when approaching new problems, and (2) focus on open research questions revealed by this work.

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Publisher Correction: Twisted moiré conductive thermal metasurface

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Nature communications 2024年第1期15卷 2876页

作者： Huagen Li Dong Wang Guoqiang Xu Kaipeng Liu Tan Zhang Jiaxin Li Guangming Tao Shuihua Yang Yanghua Lu Run Hu Shisheng Lin Ying Li Cheng-Wei Qiu Department of Electrical and Computer Engineering National University of Singapore Kent Ridge 117583 Republic of Singapore. State Key Laboratory of Extreme Photonics and Instrumentation ZJU-Hangzhou Global Scientific and Technological Innovation Center Zhejiang University Hangzhou 310027 China. International Joint Innovation Center Key Lab. of Advanced Micro/Nano Electronic Devices & Smart Systems of Zhejiang The Electromagnetics Academy of Zhejiang University Zhejiang University Haining 314400 China. Wuhan National Laboratory for Optoelectronics and State Key Laboratory of Material Processing and Die and Mould Technology School of Materials Science and Engineering Huazhong University of Science and Technology Wuhan 430074 China. Smart Materials for Architecture Research Lab Innovation Center of Yangtze River Delta Zhejiang University Jiaxing 314100 China. State Key Laboratory of Coal Combustion School of Energy and Power Engineering Huazhong University of Science and Technology Wuhan 430074 China. Chongqing 2D Materials Institute Chongqing 400015 China. State Key Laboratory of Extreme Photonics and Instrumentation ZJU-Hangzhou Global Scientific and Technological Innovation Center Zhejiang University Hangzhou 310027 China. eleying@***. International Joint Innovation Center Key Lab. of Advanced Micro/Nano Electronic Devices & Smart Systems of Zhejiang The Electromagnetics Academy of Zhejiang University Zhejiang University Haining 314400 China. eleying@***. Department of Electrical and Computer Engineering National University of Singapore Kent Ridge 117583 Republic of Singapore. chengwei.qiu@nus.edu.sg.

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Robust Semi-Global Leaderless Consensus and Containment Control of Identical Linear Systems with Imperfect Actuators

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Journal of Systems Science & Complexity 2018年第1期31卷 69-86页

作者： SHI Liangren ZHAO Zhiyun LIN Zongli Department of Automation Shanghai Jiao Tong University and Key Laboratory of System Control and Information Processing of Ministry of Education Shanghai 200240 China Key Laboratory of Advanced Control and Optimization for Chemical Processes (East China University of Science and Technology) Ministry of Education Shanghai 200237 China Charles L. Brown Department of Electrical and Computer Engineering University of Virginia P.O. Box 400743 Charlottesville VA 22904-4743 USA

This paper investigates both the robust semi-global leaderless consensus problem and the robust semi-global containment control problem for a group of identical linear systems with imperfect actuators. The imperfect actuators are characterized by nonlinearities such as saturation and dead zone and there input output relationships are not precisely known. The dynamics of follower agents are also affected by the input additive disturbances. Low-and-high gain feedback consensus protocols are constructed to solve these problems. More specifically, it is shown that robust semi-global leaderless consensus can be achieved over a connected undirected graph and robust semi-global containment control can be achieved when each follower agent has access to the information of at least one leader agent. Numerical simulation illustrates the theoretical results.

关键词： Consensus containment control dead zone leaderless consensus multi-agent systems saturation

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Demodulation method combining virtual reference interferometry and minimum mean square error for fiber-optic Fabry–Perot sensors

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Chinese Optics Letters 2018年第1期16卷 30-33页

作者：桂新旺 Michael Anthony Galle 钱黎梁伟龙周次明欧艺文范典 National Engineering Laboratory for Fiber Optic Sensing Technology Wuhan University of Technology Key Laboratory of Fiber Optic Sensing Technology and Information Processing Ministry of EducationWuhan University of Technology Department of Electrical and Computer Engineering University of Toronto

We propose a cavity length demodulation method that combines virtual reference interferometry（VRI） and minimum mean square error（MMSE） algorithm for fiber-optic Fabry–Perot（F-P） sensors. In contrast to the conventional demodulating method that uses fast Fourier transform（FFT） for cavity length estimation,our method employs the VRI technique to obtain a raw cavity length, which is further refined by the MMSE algorithm. As an experimental demonstration, a fiber-optic F-P sensor based on a sapphire wafer is fabricated for temperature sensing. The VRI-MMSE method is employed to interrogate cavity lengths of the sensor under different temperatures ranging from 28°C to 1000°C. It eliminates the ＂mode jumping＂ problem in the FFT-MMSE method and obtains a precision of 4.8 nm, corresponding to a temperature resolution of 2.0°C over a range of 1000°C. The experimental results reveal that the proposed method provides a promising, high precision alternative for demodulating fiber-optic F-P sensors.

关键词： VRI Demodulation method combining virtual reference interferometry and minimum mean square error for fiber-optic Fabry Perot sensors

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Analysis and experimental demonstration of orthant-symmetric four-dimensional 7 bit/4D-sym modulation for optical fiber communication

arXiv

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arXiv 2020年

作者： Chen, Bin Alvarado, Alex van der Heide, Sjoerd van den Hout, Menno Hafermann, Hartmut Okonkwo, Chigo The School of Computer Science and Information Engineering Hefei University of Technology Hefei China Eindhoven University of Technology Eindhoven5600 MB Netherlands The Information and Communication Theory Lab Signal Processing Systems Group Department of Electrical Engineering Eindhoven University of Technology Eindhoven5600 MB Netherlands The High Capacity Optical Transmission Laboratory Eindhoven University of Technology Eindhoven5600 MB Netherlands The Optical Communication Technology Lab Paris Research Center Huawei Technologies France SASU Boulogne-Billancourt92100 France

We propose a new four-dimensional orthant-symmetric 128-ary modulation format (4D-OS128) with a spectral efficiency of 7 bit/4D-sym. The proposed format fills the gap between polarization-multiplexed 8- and 16-ary quadrature-amplitude modulation (PM-8QAM and PM-16QAM). Numerical simulations show that 4D-OS128 outperforms two well-studied 4D geometrically-shaped modulation formats: 128SP-16QAM and 7b4D-2A8PSK by up to 0.65 dB for bit-interleaved coded modulation at the same spectral efficiency. These gains are experimentally demonstrated in a 11×233 Gbit/s wavelength division multiplexing (WDM) transmission system operating at 5.95 bit/4D-sym over 6000 km and 9000 km for both EDFA-only and hybrid amplification scenarios, respectively. A reach increase of 15% is achieved with respect to 128-ary set-partitioning 16QAM. Furthermore, the proposed 4D-OS128 is also compared to D4 lattice-based constellation, 16QAM and probabilistically-shaped 16QAM with finite blocklength via simulation. © 2020, CC BY.

关键词： Quadrature amplitude modulation

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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.

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