MyoPS: A Benchmark of Myocardial Pathology Segmentation Combining Three-Sequence Cardiac Magnetic Resonance Images

no code implementations • 10 Jan 2022 • Lei LI, Fuping Wu, Sihan Wang, Xinzhe Luo, Carlos Martin-Isla, Shuwei Zhai, Jianpeng Zhang, Yanfei Liu7, Zhen Zhang, Markus J. Ankenbrand, Haochuan Jiang, Xiaoran Zhang, Linhong Wang, Tewodros Weldebirhan Arega, Elif Altunok, Zhou Zhao, Feiyan Li, Jun Ma, Xiaoping Yang, Elodie Puybareau, Ilkay Oksuz, Stephanie Bricq, Weisheng Li, Kumaradevan Punithakumar, Sotirios A. Tsaftaris, Laura M. Schreiber, Mingjing Yang, Guocai Liu, Yong Xia, Guotai Wang, Sergio Escalera, Xiahai Zhuang

Assessment of myocardial viability is essential in diagnosis and treatment management of patients suffering from myocardial infarction, and classification of pathology on myocardium is the key to this assessment.

Data Augmentation Medical Image Segmentation

QU-BraTS: MICCAI BraTS 2020 Challenge on Quantifying Uncertainty in Brain Tumor Segmentation -- Analysis of Ranking Metrics and Benchmarking Results

1 code implementation • 19 Dec 2021 • Raghav Mehta, Angelos Filos, Ujjwal Baid, Chiharu Sako, Richard McKinley, Michael Rebsamen, Katrin Dätwyler, Raphael Meier, Piotr Radojewski, Gowtham Krishnan Murugesan, Sahil Nalawade, Chandan Ganesh, Ben Wagner, Fang F. Yu, Baowei Fei, Ananth J. Madhuranthakam, Joseph A. Maldjian, Laura Daza, Catalina Gómez, Pablo Arbeláez, Chengliang Dai, Shuo Wang, Hadrien Raynaud, Yuanhan Mo, Elsa Angelini, Yike Guo, Wenjia Bai, Subhashis Banerjee, Linmin Pei, Murat AK, Sarahi Rosas-González, Illyess Zemmoura, Clovis Tauber, Minh H. Vu, Tufve Nyholm, Tommy Löfstedt, Laura Mora Ballestar, Veronica Vilaplana, Hugh McHugh, Gonzalo Maso Talou, Alan Wang, Jay Patel, Ken Chang, Katharina Hoebel, Mishka Gidwani, Nishanth Arun, Sharut Gupta, Mehak Aggarwal, Praveer Singh, Elizabeth R. Gerstner, Jayashree Kalpathy-Cramer, Nicolas Boutry, Alexis Huard, Lasitha Vidyaratne, Md Monibor Rahman, Khan M. Iftekharuddin, Joseph Chazalon, Elodie Puybareau, Guillaume Tochon, Jun Ma, Mariano Cabezas, Xavier Llado, Arnau Oliver, Liliana Valencia, Sergi Valverde, Mehdi Amian, Mohammadreza Soltaninejad, Andriy Myronenko, Ali Hatamizadeh, Xue Feng, Quan Dou, Nicholas Tustison, Craig Meyer, Nisarg A. Shah, Sanjay Talbar, Marc-Andr Weber, Abhishek Mahajan, Andras Jakab, Roland Wiest, Hassan M. Fathallah-Shaykh, Arash Nazeri, Mikhail Milchenko, Daniel Marcus, Aikaterini Kotrotsou, Rivka Colen, John Freymann, Justin Kirby, Christos Davatzikos, Bjoern Menze, Spyridon Bakas, Yarin Gal, Tal Arbel

In this study, we explore and evaluate a metric developed during the BraTS 2019-2020 task on uncertainty quantification (QU-BraTS), and designed to assess and rank uncertainty estimates for brain tumor multi-compartment segmentation.

Brain Tumor Segmentation Translation +1

Going beyond p-convolutions to learn grayscale morphological operators

1 code implementation • 19 Feb 2021 • Alexandre Kirszenberg, Guillaume Tochon, Elodie Puybareau, Jesus Angulo

Integrating mathematical morphology operations within deep neural networks has been subject to increasing attention lately.

A Global Benchmark of Algorithms for Segmenting Late Gadolinium-Enhanced Cardiac Magnetic Resonance Imaging

no code implementations • 26 Apr 2020 • Zhaohan Xiong, Qing Xia, Zhiqiang Hu, Ning Huang, Cheng Bian, Yefeng Zheng, Sulaiman Vesal, Nishant Ravikumar, Andreas Maier, Xin Yang, Pheng-Ann Heng, Dong Ni, Caizi Li, Qianqian Tong, Weixin Si, Elodie Puybareau, Younes Khoudli, Thierry Geraud, Chen Chen, Wenjia Bai, Daniel Rueckert, Lingchao Xu, Xiahai Zhuang, Xinzhe Luo, Shuman Jia, Maxime Sermesant, Yashu Liu, Kuanquan Wang, Davide Borra, Alessandro Masci, Cristiana Corsi, Coen de Vente, Mitko Veta, Rashed Karim, Chandrakanth Jayachandran Preetha, Sandy Engelhardt, Menyun Qiao, Yuanyuan Wang, Qian Tao, Marta Nunez-Garcia, Oscar Camara, Nicolo Savioli, Pablo Lamata, Jichao Zhao

Segmentation of cardiac images, particularly late gadolinium-enhanced magnetic resonance imaging (LGE-MRI) widely used for visualizing diseased cardiac structures, is a crucial first step for clinical diagnosis and treatment.

Left Atrium Segmentation

Standardized Assessment of Automatic Segmentation of White Matter Hyperintensities and Results of the WMH Segmentation Challenge

1 code implementation • 1 Apr 2019 • Hugo J. Kuijf, J. Matthijs Biesbroek, Jeroen de Bresser, Rutger Heinen, Simon Andermatt, Mariana Bento, Matt Berseth, Mikhail Belyaev, M. Jorge Cardoso, Adrià Casamitjana, D. Louis Collins, Mahsa Dadar, Achilleas Georgiou, Mohsen Ghafoorian, Dakai Jin, April Khademi, Jesse Knight, Hongwei Li, Xavier Lladó, Miguel Luna, Qaiser Mahmood, Richard McKinley, Alireza Mehrtash, Sébastien Ourselin, Bo-yong Park, Hyunjin Park, Sang Hyun Park, Simon Pezold, Elodie Puybareau, Leticia Rittner, Carole H. Sudre, Sergi Valverde, Verónica Vilaplana, Roland Wiest, Yongchao Xu, Ziyue Xu, Guodong Zeng, Jian-Guo Zhang, Guoyan Zheng, Christopher Chen, Wiesje van der Flier, Frederik Barkhof, Max A. Viergever, Geert Jan Biessels

Segmentation methods had to be containerized and submitted to the challenge organizers.