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NEW! MICCAI Educational Challenge 2023 Materials

Finalist! Preprocessing MRI in Python

Anna Zapaishchykova, Benjamin H. Kann
Finalist! Introduction to Autoencoders

Marek Wodzinski
Finalist! Organizing a medical imaging challenge in 2020s: practical considerations

Khrystyna Faryna, Daan Schouten, Kiran Vaidhya Venkadesh, Gino Jansen, Anindo Saha, Bram van Ginneken
Finalist! A tour of biomedical image segmentation using deep learning

Pulkit Khandelwal
Finalist! Decoding Brain Connections: Exploring Neural Function Networks Through fMRI Graph Analysis

Mariem Touihri
Finalist! Transfer Learning through MobileNet and ResNet34

Ayush Garg
Podcasts with leading researchers working in AI for Medicine to help educate young researchers getting started

Jay Shah
Arizona State University
Preprocessing CT in Python

Anna Zapaishchykova, Benjamin H.Kann
Harvard Medical School
Mastering Deep Learning Architectures for Medical Semantic Segmentation: A Student's Journey

Carlotta Sophia Hölzle, Vanessa Gonzalez, Kai Standvoss, Nassir Navab
Technical University Munich
The U-Net Model

Mauricio Reyes, Aurelie Pahud, Zixin Shelley Shu
University of Bern
VTK and VMTK Deciphered: A Step-by-Step Tutorial and Hands-On MICCAI-inspired Example

Paula Feldman
Universidad Torcuato Di Tella
Intensity Normalization in Medical Imaging

Susanne Schmid, Wallace Souza Loss
University of Calgary
"AI Quest: The Black Box Chronicles": An educational quiz video game

Mauricio Reyes
University of Bern
Diffusion Model based Data Synthesis from Brain MRI: Application to Alzheimer’s Disease

Ke Chen, Ying Weng, Guokun Zuo, Tom Dening, Akram Hosseini
University of Nottingham Ningbo China
Explanative tutorial on research paper and its preliminaries

Ranjana Roy Chowdhury
IIT Ropar
Introduction to Diffusion Models

Huidong Xie, Weijie Gan
Fundamental concepts in Digital Image Processing

Manjunath K N
Manipal Academy of Higher Education
How to write a classification algorithm for your project in less than 5 minutes (ResNet & DenseNet)

Andrei Alexandru Mircea
Carol Davila University of Medicine and Pharmacy
Explainable Artificial Intelligence (XAI) in Medical Applications

Yiming Zhang and YIng Weng
University of Nottingham Ningbo China
Annotating Surgical Video Data with Label Studio

Yannik Frisch
TU Darmstadt, Software Campus, Zeiss Group
PhD life: things I had to learn and unlearn

Leonardo Ayala
German Cancer Research Center
Exploring AI-derived annotations in Imaging Data Commons (IDC)

Deepa Krishnaswamy, Andrey Fedorov
Brigham and Women's Hospital
A New Frontier in Medicine: 3D Scene Understanding in Surgical Data Science

Tony Danjun Wang, Lennart Bastian, Nassir Navab
Technical University of Munich
Echoes from the DataRealm

Lalith Sharan, Georgii Kostiuchik, Sandy Engelhardt
Heidelberg University Hospital
Tutorials on Segment Anything in Medical Images

Jun Ma, Feifei Li, Yuting He, Lin Han, Chenyu You, Bo Wang
University of Toronto
Generative AI in Medical Images

Vanshali Sharma
Indian Institute of Technology Guwahati, India

MICCAI Educational Challenge 2022 Materials

Capturing Uncertainty in Medical Image Segmentation

Vatsal Raina
University of Cambridge
Automating Medical Image Processing with 3D Slicer

Antoine Sanner
Technical University of Darmstadt
An Intuitive Grasp on Segmentation Metrics

Playout Clément, Richer Emmanuelle, and Lepetit-Aimon Gabriel
Polytechnique Montréal, Hôpital Maisonneuve-Rosemont
BENDER Series- BEst practices in medical imagiNg DEep leaRning

Mauricio Reyes, Yannick Suter, Alba Segura, Mike Muller, Amith Kamath
University of Bern
Why F1 score is not enough? (Demystifying AUC)

Arash Ash
ETS Montreal
MNIST Digit Classifier on the Web

Gia Ngo, Minh Nguyen, Benjamin Lee
Cornell University
Setting up a website and evaluation system for a clinical challenge

Lennart Paul, Vanessa,Gonzalez, Nassir Navab
Technical University of Munich
Post-hoc explainable AI algorithms review

Weina Jin
Simon Fraser University
Nuclear Medicine Physics Lecture Series

Arman Rahmim and Carlos Uribe
The University of British Columbia
How to "Hack" Proprietary AI Image Processing Software

Andreas Maier
Fau Erlangen-Nürnberg
Introduction to Medical Software (Coursera)

Xenophon Papademetris
Yale School of Medicine
Generally Nuanced Deep Learning Framework (GaNDLF): Classification Task

Garv Mehdiratta, Ujjwal Baid, and Spyridon Bakas
University of Pennsylvania

MICCAI Educational Challenge 2021 Materials

Maier Unleashed - Review Rant - Part 1

Andreas Maier
Friedrich-Alexander-Universität Erlangen-Nürnberg
How to use Dwave Quantum Annealer & example of network optimization for brain or protein networks

Alex Crimi
Sano, Center for Computational Medicine
A discovery dive into the world of evaluation — Do’s, don’ts and other considerations

Annika Reinke, Minu Tizabi, Carole Sudre
German Cancer Research Center, King's College London, University College London
Brain MRI Age Classification using Deep Learning

Vijay Iyer, Sameer Muckatira, Eshan Joshi, Maria Duarte Rosa, Julia Hoerner, Amith Kamath. Mathworks
An interactive introduction to Multiview Learning with Canonical Correlation Analysis and Partial Least Squares using cca-zoo

James Chapman
University College London
Cell Detection with Contour Proposal Networks

Eric Upschulte
Forschungzentrum Juelich
Introducing the generally nuanced DL framework Segmentation Challenge

Sarthak Pati and Siddhesh P. Thakur, et. al
UPenn, TU Munich, TU Darmstadt, Germany Intel Corporation, University of Zurich, University of Edinburgh
Learning the Effect of Registration Hyperparameters

Andrew Hoopes and Adrian Dalca
Harvard University
Image Registration with the VoxelMorph Framework

Adrian Dalca and Andrew Hoopes
Harvard University
Curating and Preprocessing of a Dataset for Medical Image Registration

Mattias Heinrich
University of Luebeck
Project Roadmap for X-Ray Classifiers

Solace Hussein and Ben Duvieusart
University of Oxford
Computed Tomography techniques for the evaluation of Intestine

Manjunath K N
Manipal Institute of Technology, India
Whole-brain Segmentation with FastSurfer - How to create simple, intuitive and understandable tutorials for DL based neuroimaging applications in Colab

Leonie Henschel and Martin Reuter
DZNE Germany

MEC 2020 Materials

View Teaser Videos For 2020 Finalists

MEC 2019 Materials

Complete MEI Materials Library

MEC 2019   ·  MISS 2018   ·  MEC 2018   ·  MISS 2016   ·  MEC 2015 Winners

MISS 2014   ·  MEC 2014 Winners   ·  MEC 2014-2015 Entries

MISS 2018 Talks

Entire MISS 2018 YouTube playlist

MEC 2018 Materials

MISS 2016 Talks

Entire MISS 2016 YouTube playlist

MEC 2015 Winners

ID#4 - DWI and Microstructure

Maxime Taquet
1st Prize Expert Panel.
ID#5 - Epipolar Consistency of X-ray Images

Andre Aichert
1st Prize Popular Vote.
ID#3 - Random walks in medical image processing

Mattias Heinrich
2nd Prize Expert Panel.
ID#2 - Understanding an MRI Pulse Sequence using a Guitar

Dr. Battista
Medical Biophysics as Western University
2nd Prize Popular Vote.

MISS 2014 Talks

Entire MISS 2014 youtube playlist

MEC 2014 Winners

ID3: Your friendly guide to human brain atlases.

1st place Expert Panel
Yiming Xiao and Ian Gerard
Montreal Neurological Institute, McGill University
ID9 - Singular Value Decomposition

2nd place Expert Panel
Xiao Huang, Xiao Xue, Judith Zimmermann, Piotr Wojewnik
Technical University Munich
ID13 - Statistics on Lie groups for Computational Anatomy

1st place Popular Vote
Nina Miolane, Bishesh Khanal
INRIA Sophia Antipolis
ID11 - Intraoperative Nuclear Imaging

2nd place Popular Vote
Asli Okur, Philipp Matthies, Jose Gardiazabal, Oliver Zettinig, Christoph Hennersperger, Richard Brosig, Nassir Navab
Technical University Munich, Johns Hopkins

MEC 2014 & 2015 Entries in Random Order

The entire MEC2014 playlist is available here.

ID#1 - Automatic Segmentation of Interacting Cells

Danna Gurari
ID#6 - Going with the Flow - How 3D Printing and Prototype Design can Fight Coronary Artery Disease.

Susann Beier
ID1 - Motion Artifacts in Computed Tomography

Jerry Battista, Colin Versnick, and Kevin Jordan
Western University
ID2 - 3DMeshMetric video tutorial

Juliette Pera, Francois Budin, Tung Nguyen, Beatriz Paniagua
UNC-Chapel Hill
ID4 - Manopt, a Matlab toolbox for optimization on matrix manifolds

Nicolas Boumal
Universite catholique de Louvain
ID5 - Sparsity-Based Regularization

Shadi Albarqouni
Technical University Munich
ID6 - Medical Augmented Reality

Severine Habert and Meng Ma
Technical University Munich
ID7 - Mutual Information

Andrii Kravtsiv, Burcu Altinkaya, Jun Shen, Yuxiang Gong, Zhengyu Shan
Technical University Munich
ID8 - Ray Casting

Laura Flores Sanchez, Jihye Jang, Nicola Leucht, Tushar Upadhyah, Tao Ye
Technical University Munich
ID10 - 5: 3D Craniofacial Quantification of Changes-Compute the Surface Distances using a Color Map

Nicole Pentis, Lucia Cevidanes, Antonio Ruellas, Vinicius Boen, Beatriz Paniagua, Francois Budin, Alexis Girault, Martin Styner, Steve Pieper
University of Michigan, University of North Carolina at Chapel Hill, Isomics Inc.
ID12 - Discrete Optimisation for Medical Image Registration

Mattias P. Heinrich
University of Lubeck, University of Oxford · More Info
ID14 - Medical Image Segmentation [2 parts]

Ramesh Sridharan
MIT CSAIL · More Info and both parts
ID15 - Continuous Spatio-Temporal Atlases of the Asymptomatic and Infarcted Hearts

Pau Medrano-Gracia
University of Auckland