This folder contains the material for "Estimation of brain tissue microstructure with dMRI" course of the 2022 UCL Medical Image Computing Summer School (MedICSS).
The aim of this project is to explore different approaches of estimating brain tissue microstructure parameters from diffusion MRI data.
If you want to know more you can have a look at the introductoy slides available here.
The entire course is developed in MATLAB, so make sure to have it installed on you computer. The course was tested on MATLAB R2022a. The Deep Learning Toolbox and Statistics and Machine Learning Toolbox are available from 2019a version on, so you should have at least that version.
You will need to have the following add-on toolboxes installed on your MATLAB:
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Optimization toolbox.
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Deep Learning Toolbox.
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Statistics and Machine Learning Toolbox.
You can check the add-on currently installed on your MATLAB as well as donwload the missing ones simply from your MATLAB main window. You can find the process illustrated by the following screenshots: step1, step2.
The best way to install this GitHub folder is directly from your MATLAB main window using a simple GUI. You can find the process illustrated by the following set of screenshots: step1, step2, step3. The documentation of this functionality is available here.
Alternatively you can download a zip version of the repository from the git repository web page or use the following command from terminal:
git clone https://github.com/CIG-UCL/MedICSS_2022_microImag.git
Once you have downloaded the project folder we need to add the folder to your MATLAB path. You can find the process illustrated by the following set of screenshots: step1, step2.
You can find the course material in doc/course_material.
At the end of each day I will add the solution to the task of the day in doc/solutions.