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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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Dispensed transformer network for unsupervised domain adaptation

arXiv

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arXiv 2021年

作者： Li, Yunxiang Li, Jingxiong Dan, Ruilong Wang, Shuai Jin, Kai Zeng, Guodong Wang, Jun Pan, Xiangji Zhang, Qianni Zhou, Huiyu Jin, Qun Wang, Li Wang, Yaqi College of Computer Science and Technology Hangzhou Dianzi University Hangzhou China Artificial Intelligence and Biomedical Image Analysis Lab Westlake University Hangzhou China School of Mechanical Electrical and Information Engineering Shandong University Weihai China Department of Ophthalmology Hospital of Zhejiang University Hangzhou China sitem Center for Translational Medicine and Biomedical Entrepreneurship University of Bern Bern Switzerland School of Biomedical Engineering Shanghai Jiao Tong University Shanghai China School of Electronic Engineering and Computer Science Queen Mary University of London London United Kingdom School of Computing and Mathematical Sciences University of Leicester United Kingdom Department of Human Informatics and Cognitive Sciences Faculty of Human Sciences Waseda University Tokyo Japan Department of Radiology and Biomedical Research Imaging Center University of North Carolina at Chapel Hill Chapel Hill United States College of Media Engineering Communication University of Zhejiang Hangzhou China

Accurate segmentation is a crucial step in medical image analysis and applying supervised machine learning to segment the organs or lesions has been substantiated effective. However, it is costly to perform data annotation that provides ground truth labels for training the supervised algorithms, and the high variance of data that comes from different domains tends to severely degrade system performance over cross-site or cross-modality datasets. To mitigate this problem, a novel unsupervised domain adaptation (UDA) method named dispensed Transformer network (DTNet) is introduced in this paper. Our novel DTNet contains three modules. First, a dispensed residual transformer block is designed, which realizes global attention by dispensed interleaving operation and deals with the excessive computational cost and GPU memory usage of the Transformer. Second, a multi-scale consistency regularization is proposed to alleviate the loss of details in the low-resolution output for better feature alignment. Finally, a feature ranking discriminator is introduced to automatically assign different weights to domain-gap features to lessen the feature distribution distance, reducing the performance shift of two domains. The proposed method is evaluated on large fluorescein angiography (FA) retinal nonperfusion (RNP) cross-site dataset with 676 images and a wide used cross-modality dataset from the MM-WHS challenge. Extensive results demonstrate that our proposed network achieves the best performance in comparison with several state-of-the-art techniques. © 2021, CC BY.

关键词： Supervised learning

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Center-extraction-based three dimensional nuclei instance segmentation of fluorescence microscopy images

arXiv

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arXiv 2019年

作者： Ho, David Joon Han, Shuo Fu, Chichen Salama, Paul Dunn, Kenneth W. Delp, Edward J. Video and Image Processing Laboratory School of Electrical and Computer Engineering Purdue University West LafayetteIN United States Department of Electrical and Computer Engineering Indiana University-Purdue University IndianapolisIN United States Division of Nephrology School of Medicine Indiana University IndianapolisIN United States

Fluorescence microscopy is an essential tool for the analysis of 3D subcellular structures in tissue. An important step in the characterization of tissue involves nuclei segmentation. In this paper, a two-stage method for segmentation of nuclei using convolutional neural networks (CNNs) is described. In particular, since creating labeled volumes manually for training purposes is not practical due to the size and complexity of the 3D data sets, the paper describes a method for generating synthetic microscopy volumes based on a spatially constrained cycle-consistent adversarial network. The proposed method is tested on multiple real microscopy data sets and outperforms other commonly used segmentation techniques. Copyright © 2019, The Authors. All rights reserved.

关键词： Generative adversarial networks

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AIM 2020 Challenge on image Extreme Inpainting 16th

AIM 2020 Challenge on Image Extreme Inpainting

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Workshops held at the 16th European Conference on computer Vision, ECCV 2020

作者： Ntavelis, Evangelos Romero, Andrés Bigdeli, Siavash Timofte, Radu Hui, Zheng Wang, Xiumei Gao, Xinbo Shin, Chajin Kim, Taeoh Son, Hanbin Lee, Sangyoun Li, Chao Li, Fu He, Dongliang Wen, Shilei Ding, Errui Bai, Mengmeng Li, Shuchen Zeng, Yu Lin, Zhe Yang, Jimei Zhang, Jianming Shechtman, Eli Lu, Huchuan Zeng, Weijian Ni, Haopeng Cai, Yiyang Li, Chenghua Xu, Dejia Wu, Haoning Han, Yu Nadim, Uddin S. M. Jang, Hae Woong Ahmed, Soikat Hasan Yoon, Jungmin Jung, Yong Ju Li, Chu-Tak Liu, Zhi-Song Wang, Li-Wen Siu, Wan-Chi Lun, Daniel P. K. Suin, Maitreya Purohit, Kuldeep Rajagopalan, A.N. Narang, Pratik Mandal, Murari Chauhan, Pranjal Singh Computer Vision Lab ETH Zürich Zürich Switzerland CSEM Neuchâtel Switzerland School of Electronic Engineering Xidian University Xi’an China Image and Video Pattern Recognition Laboratory School of Electrical and Electronic Engineering Yonsei University Seoul Korea Republic of Baidu Inc. Beijing China Beijing China Dalian University of Technology Dalian China Adobe San Jose United States Rensselaer Polytechnic Institute Troy United States Peking University Beijing China Lab Gachon University Seongnam Korea Republic of Centre for Multimedia Signal Processing Department of Electronic and Information Engineering The Hong Kong Polytechnic University Hong Kong China Indian Institute of Technology Madras Chennai India BITS Pilani Pilani India MNIT Jaipur Jaipur India

ISBN: (纸本)9783030670696

This paper reviews the AIM 2020 challenge on extreme image inpainting. This report focuses on proposed solutions and results for two different tracks on extreme image inpainting: classical image inpainting and semantically guided image inpainting. The goal of track 1 is to inpaint large part of the image with no supervision. Similarly, the goal of track 2 is to inpaint the image by having access to the entire semantic segmentation map of the input. The challenge had 88 and 74 participants, respectively. 11 and 6 teams competed in the final phase of the challenge, respectively. This report gauges current solutions and set a benchmark for future extreme image inpainting methods. © 2020, Springer Nature Switzerland AG.

关键词： Semantic Segmentation

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Benchmarking the CoW with the TopCoW Challenge: Topology-Aware Anatomical Segmentation of the Circle of Willis for CTA and MRA

arXiv

引用

arXiv 2023年

作者： Yang, Kaiyuan Musio, Fabio Ma, Yihui Juchler, Norman Paetzold, Johannes C. Al-Maskari, Rami Höher, Luciano Li, Hongwei Bran Hamamci, Ibrahim Ethem Sekuboyina, Anjany Shit, Suprosanna Huang, Houjing Prabhakar, Chinmay de la Rosa, Ezequiel Waldmannstetter, Diana Kofler, Florian Navarro, Fernando Menten, Martin Ezhov, Ivan Rueckert, Daniel Vos, Iris Ruigrok, Ynte Velthuis, Birgitta Kuijf, Hugo Hämmerli, Julien Wurster, Catherine Bijlenga, Philippe Westphal, Laura Bisschop, Jeroen Colombo, Elisa Baazaoui, Hakim Makmur, Andrew Hallinan, James Wiestler, Bene Kirschke, Jan S. Wiest, Roland Montagnon, Emmanuel Letourneau-Guillon, Laurent Galdran, Adrian Galati, Francesco Falcetta, Daniele Zuluaga, Maria A. Lin, Chaolong Zhao, Haoran Zhang, Zehan Ra, Sinyoung Hwang, Jongyun Park, Hyunjin Chen, Junqiang Wodzinski, Marek Müller, Henning Shi, Pengcheng Liu, Wei Ma, Ting Yalçin, Cansu Hamadache, Rachika E. Salvi, Joaquim Llado, Xavier Estrada, Uma Maria Lal-Trehan Abramova, Valeriia Giancardo, Luca Oliver, Arnau Liu, Jialu Huang, Haibin Cui, Yue Lin, Zehang Liu, Yusheng Zhu, Shunzhi Patel, Tatsat R. Tutino, Vincent M. Orouskhani, Maysam Wang, Huayu Mossa-Basha, Mahmud Zhu, Chengcheng Rokuss, Maximilian R. Kirchhoff, Yannick Disch, Nico Holzschuh, Julius Isensee, Fabian Maier-Hein, Klaus Sato, Yuki Hirsch, Sven Wegener, Susanne Menze, Bjoern Department of Quantitative Biomedicine University of Zurich Zurich Switzerland Center for Computational Health Zurich University of Applied Sciences Zurich Switzerland Department of Neuroradiology University Hospital of Zurich Zurich Switzerland Department of Neurosurgery Zhongnan Hospital of Wuhan University Wuhan China Department of Computing Imperial College London London United Kingdom Helmholtz Center Munich Germany Athinoula A. Martinos Center for Biomedical Imaging Harvard Medical School Boston United States School of Medicine Technical University of Munich Munich Germany Department of Informatics Technical University of Munich Munich Germany Helmholtz AI Helmholtz Munich Munich Germany Image Sciences Institute UMC Utrecht Utrecht Netherlands Department of Neurology UMC Utrecht Utrecht Netherlands Department of Radiology UMC Utrecht Utrecht Netherlands Department of Clinical Neurosciences Division of Neurosurgery Geneva University Hospitals Geneva Switzerland Department of Neurology University Hospital of Zurich Zurich Switzerland Department of Physiology University of Toronto Toronto Canada Department of Neurosurgery University Hospital of Zurich Zurich Switzerland Department of Diagnostic Imaging National University Hospital Singapore Department of Diagnostic and Interventional Neuroradiology University Hospital Berne University of Berne Berne Switzerland Montreal Canada Universitat Pompeu Fabra Barcelona Spain EURECOM Biot France Institute of Medical Technology Peking University Health Science Center Beijing China Hangzhou Genlight Medtech Co. Ltd. Hangzhou China Department of Artificial Intelligence Sungkyunkwan University Seoul Korea Republic of Department of Electrical and Computer Engineering Sungkyunkwan University Seoul Korea Republic of Shanghai MediWorks Precision Instruments Co. Ltd. Shanghai China Institute of Informatics HES-SO Valais-Wallis Switzerland Department of Measurement and Electronics AGH University

The Circle of Willis (CoW) is an important network of arteries connecting major circulations of the brain. Its vascular architecture is believed to affect the risk, severity, and clinical outcome of serious neuro-vascular diseases. However, characterizing the highly variable CoW anatomy is still a manual and time-consuming expert task. The CoW is usually imaged by two angiographic imaging modalities, magnetic resonance angiography (MRA) and computed tomography angiography (CTA), but there exist limited public datasets with annotations on CoW anatomy, especially for CTA. Therefore we organized the TopCoW Challenge in 2023 with the release of an annotated CoW dataset. The TopCoW dataset was the first public dataset with voxel-level annotations for thirteen possible CoW vessel components, enabled by virtual-reality (VR) technology. It was also the first large dataset with paired MRA and CTA from the same patients. TopCoW challenge formalized the CoW characterization problem as a multiclass anatomical segmentation task with an emphasis on topological metrics. We invited submissions worldwide for the CoW segmentation task, which attracted over 140 registered participants from four continents. The top performing teams managed to segment many CoW components to Dice scores around 90%, but with lower scores for communicating arteries and rare variants. There were also topological mistakes for predictions with high Dice scores. Additional topological analysis revealed further areas for improvement in detecting certain CoW components and matching CoW variant topology accurately. TopCoW represented a first attempt at benchmarking the CoW anatomical segmentation task for MRA and CTA, both morphologically and topologically. © 2023, CC BY-NC-ND.

关键词： Large datasets

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In-between and cross-frequency dependence-based summarization of resting-state fMRI data

In-between and cross-frequency dependence-based summarizatio...

引用

2018 IEEE Southwest Symposium on image analysis and Interpretation, SSIAI 2018

作者： Yaesoubi, Maziar Silva, Rogers F. Calhoun, Vince D. Medical Image Analysis Lab Mind Research Network Albuquerque United States Electrical and Computer Engineering Department University of New Mexico Albuquerque United States

ISBN: (纸本)9781538665688

Various data summarization approaches which consist of basis transformation and dimension reduction have been commonly used for information retrieval from brain imaging data including functional magnetic resonance imaging (fMRI). However, most approaches do not include frequency variation of the temporal data in the basis transformation. Here we propose a novel approach to incorporate in-between and cross-frequency dependence for summarization of resting-state fMRI data. © 2018 IEEE.

关键词： Metadata

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Fetal Brain Tissue Annotation and Segmentation Challenge Results

arXiv

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arXiv 2022年

作者： Payette, Kelly Li, Hongwei De Dumast, Priscille Licandro, Roxane Ji, Hui Siddiquee, Md Mahfuzur Rahman Xu, Daguang Myronenko, Andriy Liu, Hao Pei, Yuchen Wang, Lisheng Peng, Ying Xie, Juanying Zhang, Huiquan Dong, Guiming Fu, Hao Wang, Guotai Rieu, ZunHyan Kim, Donghyeon Kim, Hyun Gi Karimi, Davood Gholipour, Ali Torres, Helena R. Oliveira, Bruno Vilaça, João L. Lin, Yang Avisdris, Netanell Ben-Zvi, Ori Bashat, Dafna Ben Fidon, Lucas Aertsen, Michael Vercauteren, Tom Sobotka, Daniel Langs, Georg Alenyà, Mireia Villanueva, Maria Inmaculada Camara, Oscar Fadida, Bella Specktor Joskowicz, Leo Weibin, Liao Yi, Lv Xuesong, Li Mazher, Moona Qayyum, Abdul Puig, Domenec Kebiri, Hamza Zhang, Zelin Xu, Xinyi Wu, Dan Liao, KuanLun Wu, YiXuan Chen, JinTai Xu, Yunzhi Zhao, Li Vasung, Lana Menze, Bjoern Cuadra, Meritxell Bach Jakab, Andras Center for MR Research University Children's Hospital Zurich University of Zurich Zurich Switzerland Neuroscience Center Zurich University of Zurich Zurich Switzerland Department of Quantitative Biomedicine University of Zurich Zurich Switzerland Department of Informatics Technical University of Munich Munich Germany Medical Image Analysis Laboratory Department of Diagnostic and Interventional Radiology Lausanne University Hospital University of Lausanne Lausanne Switzerland CIBM Center for Biomedical Imaging Lausanne Switzerland Laboratory for Computational Neuroimaging Athinoula A. Martinos Center for Biomedical Imaging Massachusetts General Hospital Harvard Medical School CharlestownMA United States Medical University of Vienna Vienna Austria Arizona State University United States NVIDIA United States Shanghai Jiaotong University China School of Computer Science Shaanxi Normal University Xi'An710119 China Research Institute NEUROPHET Inc. Seoul06247 Korea Republic of Department of Radiology The Catholic University of Korea Eunpyeong St. Mary's Hospital Seoul06247 Korea Republic of Boston Children's Hospital Harvard Medical School BostonMA United States 2Ai - School of Technology IPCA Barcelos Portugal Algoritmi Center School of Engineering University of Minho Guimarães Portugal School of Medicine University of Minho Braga Portugal ICVS 3B's - PT Government Associate Laboratory Guimarães Braga Portugal School of Computer Science and Engineering The Hebrew University of Jerusalem Israel Sagol Brain Institute Tel Aviv Sourasky Medical Center Israel Sagol School of Neuroscience Tel Aviv University Israel Sackler Faculty of Medicine Tel Aviv University Israel School of Biomedical Engineering & Imaging Sciences King's College London LondonSE1 7EU United Kingdom Department of Radiology University Hospitals Leuven Leuven3000 Belgium Computational Imaging Research Lab Department of Biomedical Imaging and Image-guided Therapy Medical

In-utero fetal MRI is emerging as an important tool in the diagnosis and analysis of the developing human brain. Automatic segmentation of the developing fetal brain is a vital step in the quantitative analysis of prenatal neurodevelopment both in the research and clinical context. However, manual segmentation of cerebral structures is time-consuming and prone to error and inter-observer variability. Therefore, we organized the Fetal Tissue Annotation (FeTA) Challenge in 2021 in order to encourage the development of automatic segmentation algorithms on an international level. The challenge utilized FeTA Dataset, an open dataset of fetal brain MRI reconstructions segmented into seven different tissues (external cerebrospinal fluid, grey matter, white matter, ventricles, cerebellum, brainstem, deep grey matter). 20 international teams participated in this challenge, submitting a total of 21 algorithms for evaluation. In this paper, we provide a detailed analysis of the results from both a technical and clinical perspective. All participants relied on deep learning methods, mainly U-Nets, with some variability present in the network architecture, optimization, and image pre- and post-processing. The majority of teams used existing medical imaging deep learning frameworks. The main differences between the submissions were the fine tuning done during training, and the specific pre- and post-processing steps performed. The challenge results showed that almost all submissions performed similarly. Four of the top five teams used ensemble learning methods. However, one team's algorithm performed significantly superior to the other submissions, and consisted of an asymmetrical U-Net network architecture. This paper provides a first of its kind benchmark for future automatic multi-tissue segmentation algorithms for the developing human brain in utero. © 2022, CC BY.

关键词： Magnetic resonance imaging

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Metrics Reloaded: Recommendations for image analysis validation

arXiv

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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

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Graph Modularity and Randomness Measures : A Comparative Study

Graph Modularity and Randomness Measures : A Comparative Stu...

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2018 IEEE Southwest Symposium on image analysis and Interpretation, SSIAI 2018

作者： Vergara, Victor M. Yu, Qingbao Calhoun, Vince D. Medical Image Analysis Laboratory Mind Research Network AlbuquerqueNM United States Department of Electrical and Computer Engineering University of New Mexico AlbuquerqueNM United States

ISBN: (纸本)9781538665688

The human brain connectome exhibits a specific structure diagram that is understood to not be wired for randomness. However, aberrant connectivity has been detected and moreover linked to multiple neuropsychiatric and neurological diseases. Graph theory has provided a set of methods to evaluate disruption of brain structure organization. An alternative approach evaluates the difference between brain connectivity matrices and random matrices aiming at assessing randomness. This work compares both approaches within the context of random connectivity. Results indicate the correlation between the two assessments depends on the degree and can be as high as 0.3. Consequently, the two concepts can be treated as complementary, but addressing different aspects of randomness. © 2018 IEEE.

关键词： Graph theory

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Using image-extracted features to determine heart rate and blink duration for driver sleepiness detection

arXiv

引用

arXiv 2019年

作者： Darzi, Erfan Mohammadie-Zand, Armin Soltanian-Zadeh, Hamid School of Electrical and Computer Engineering College of Engineering University of Tehran Tehran Iran Department of Electerical Engineering Amirkabir University of Technology Tehran Iran Medical Image Analysis Laboratory Henry Ford Health System Detroit MI United States

Heart rate and blink duration are two vital physiological signals which give information about cardiac activity and consciousness. Monitoring these two signals is crucial for various applications such as driver drowsiness detection. As there are several problems posed by the conventional systems to be used for continuous, long-term monitoring, a remote blink and ECG monitoring system can be used as an alternative. For estimating the blink duration, two strategies are used. In the first approach, pictures of open and closed eyes are fed into an Artificial Neural Network (ANN) to decide whether the eyes are open or close. In the second approach, they are classified and labeled using Linear Discriminant analysis (LDA). The labeled images are then be used to determine the blink duration. For heart rate variability, two strategies are used to evaluate the passing blood volume: Independent Component analysis (ICA);and a chrominance based method. Eye recognition yielded 78-92% accuracy in classifying open/closed eyes with ANN and 71-91% accuracy with LDA. Heart rate evaluations had a mean loss of around 16 Beats Per Minute (BPM) for the ICA strategy and 13 BPM for the chrominance based technique. Copyright © 2019, The Authors. All rights reserved.

关键词： Heart

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