Mathematical Modelling and Numerical Simulation in Medicine

Registration deadline: February 28, 2023.

• Monday June 5: 09:30 begin of scientific programme
• Friday June 16: 16:00 closing ceremony

Organizers, plenary speakers

• Gemayqzel Bouza Allende, University of Havana
• Stefan Sauter, University of Zürich

Plenary speakers

• Juan Carlos De Los Reyes, Escuela Politécnica Nacional Quito
• Wolfgang Hackbusch, Max-Planck Institute of Mathematics in the Sciences, Leipzig
• Angela M. León-Mecías, University of Havana
• José A. Mesejo-Chiong, University of Havana
• Otmar Scherzer, University of Vienna
• David Sinden, Fraunhofer Institute for Digital Medicine MEVIS Bremen
• Christiane Tammer, University of Halle

Organizing Committee

• Valentina Badía Albanés, University of Havana
• Gemayqzel Bouza Allende, University of Havana
• Celia Tamara González González, University of Havana
• Wilfredo Morales Lezca, University of Havana
• Luis Ramiro Piñeiro Díaz, University of Havana
• Stefan Sauter, University of Zürich

Scientific Committee

• Didier Aussel, University of Perpignan
• Gemayqzel Bouza Allende, University of Havana
• Annalisa Buffa, EPFL Lausanne
• Carsten Carstensen, Humboldt University Berlin
• Stefan Sauter, University of Zürich
• Barbara Wohlmuth, Technical University, Munich

1. Please make sure to organize your appropriate visa.
2. The airport taxis(the yellow ones) are perfectly safe. The trip to Vedado costs around USD 25.00.
3. The lodgings are arranged in double rooms located at nearby family houses that rent rooms. Each room has its own bathroom and air conditioning. Please let us know if you have someone you prefer to share the room with.
4. For breakfast options you can have snacks in cafeterias close by or at Hotel Habana Libre (about USD 5.00 for an American breakfast).
5. The zone is full of restaurants where you can have the meals not given at the school.
6. Vedado is a secure zone and close to theaters you can go during the weekends. If you need any further information, please contact us via: franziska.robmann@math.uzh.ch or directly.
7. On June 10th, 2023, a one-day excursion will be organized.

• otomo-samples
• otomo-tk

git clone
git clone samples

into a directory (git-lfs has to be installed otherwise it does not work)

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Exercise:

start matlab
go to the directory where git has been installed.

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open loadimages.m in otomo-tk/matlab (you get our collected images. standard is origami.) click run
%
open reconstruction.m
click run
% Visualize
volumeViewer(rec2)
That is already the result of a tomographic inversion.
Play around with the setting. Discuss the effect of noise.

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Now the actual exercises:
Choose a different data then the origami: I like the halogenbulb
1. Change the file to halogenbulb in loadimages.m
2. In reconstruction.m change to (these settings are different for other data, you need to play around with them)

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1 Example:

Reduce the number of images for processing: skip = 50 for instance in loadimages.m
You only use images with index 50, 100, 150, 200, 250, 300, 350, 400
Play around with skip, which artifacts you observe?

2. Example (limited view).

Add after scale = 0.5; the following command nfiles = nfiles / 2;
%This reduces the considered files to the first half files (only recordings from 0 to 90 degree)
Change in reconstruction.m % angle of rotation theta = 90 / ( size( images, 3 ) ); Which artifacts can you observe?

Organizers, plenary speakers

Plenary speakers

Participants