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Advanced deep learning for image analysis – Course and Conference Office

EMBL Course

Advanced deep learning for image analysis

Overview

Course overview

The advent of deep learning has brought a revolution in the field of computer vision, including most tasks and research questions concerned with microscopy image analysis. Neural networks have been successfully used for image restoration, classification and segmentation, for the detection of objects and characterisation of their morphology, and for high-throughput imaging and large-scale processing in 3D. Despite these advances, training and deployment of such neural networks remains difficult for practitioners of image analysis. The aim of our course is to close this gap and teach the participants, in the most hands-on way possible, to apply deep learning-based methods to their own data and image analysis problems.

This time, we aim not to start from scratch but to address participants who already had their first experience training a network in their own code, either in a course or through their own experimentation. Together, we will troubleshoot and debug, evaluate more advanced methods and learn about the state-of-the-art in the field.

Audience

This course is aimed at both core facility staff and research scientists. Prerequisites for this workshop are programming experience in Python, including solid knowledge of operations with images and first experience of applying deep learning algorithms.

Learning outcomes

  • Understand the fundamentals of applying deep learning to image analysis in microscopy
  • Learn where the state-of-the-art of the field stands for the most important image analysis problems
  • Advise users/colleagues in strategies to obtain ground truth
  • Select and train a neural network on a bioimage analysis task
  • Devise a validation strategy for the results

Modules / resources

  1. Segmentation, for 2D and 3D, from scratch and finetuning
  2. Tracking
  3. Generative models, for image restoration and beyond

What past participants say about the course

“I attended the Deep Learning course and I couldn’t be happier with that decision. The venue, the instructors, the content and the organization was excellent. Social interactions were on par, definitely a great experience.” – Alberto Díez, CEMIR – NTNU, Norway

“I recently attended the ‘Deep learning for Image analysis’ course at EMBL and I cannot
express enough how immensely useful, informative and enjoyable it was. The course not only gives the participants a complete overview and understanding of existing tools and techniques through lectures given by experts in the field, but it also provides them with the opportunity to apply these techniques on their own data and scientific problem. I really appreciated the overall hands-on approach and I am extremely grateful for the trainers help throughout the practicals.” – Camille Lambert, EPFL, Switzerland

Date: 17 - 21 Feb 2025

Location: EMBL Heidelberg

Venue: EMBL Advanced Training Centre

Deadline(s):

Closed

Organisers:

EMBL Courses and Conferences are kindly supported by our Corporate Partnership Programme

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