Imaging ONE WORLD - "GPU-accelerated 3D image processing for everyone"

22 February 2021

Online

RMS Hosted Event

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Overview

This week will feature Robert Haase from Technische Universitat Dresden.

Scientific Organisers: Stefanie Reichelt, Alex Sossick, Nick Barry, Alessandro Esposito and Kirti Prakash

The meeting will begin at 13:00GMT.

As part of the 'Imaging ONE WORLD' series, the focus of these lectures is on microscopy and image analysis methods and how to apply these to your research. Almost all aspects of imaging such as sample preparation, labelling strategies, experimental workflows, ‘how-to’ image and analyse, as well as facilitating collaborations and inspiring new scientific ideas will be covered. Speakers will be available for questions and answers. The organisers, CRUK CI core facility staff, Gurdon Institute, MRC-LMB, MRC Cancer Unit and NPL will be able to continue the discussion and provide advice on your imaging projects.


Speaker

  • Robert Haase

    Technische Universitat Dresden
    Robert is a computer scientist by training and started his scientific career in Nasreddin Abolmaali’s group at the OncoRay, an interdisciplinary cancer research center, working on advanced image processing for radiotherapy treatment planning and response prediction. During his PhD, he developed algorithms based on artificial swarm intelligence for medical 3D image segmentation. After serving the community a couple of years as scientific bio-image analyst in the Scientific Computing Facility at the Max Planck Institute for Molecular Cell Biology and Genetics in Dresden, he joined Gene Myers’ lab at the Center for Systems Biology Dresden as post-doc to dive into smart autonomous microscopy and GPU-accelerated image processing. Recently, he joined the DFG Cluster of Excellence "Physics of Life" at the TU Dresden as group leader for bio-image analysis technology development.
    Find out more about Robert by clicking here.

Speaker Abstract

Thanks to recent advances in development of graphics processing units (GPUs) a number of new computational approaches to study biological phenomena arised. GPU-acceleration is not just key for the application of artificial intelligence to solve complex tasks in microscopical image processing, it also allows to design image analysis workflows interactively and inspect results in real-time. Thanks to compute-time reduction of orders of magnitude, more complex workflows can be designed. Thus, end-users can answer scientific questions which were not accessible so far because of computational limitations. This talk will give insights about how the GPU-accelerated image processing libraries CLIJ and clEsperanto work, and how they can be used on the platforms Fiji and Napari to setup advanced image analysis workflows for studying biological phenomena in three dimensions and over time.



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