SlicerDMRI: Learn to use and program open-source diffusion MRI software

Hands-on Tutorial on SlicerDMRI, hosted by MICCAI 2018

Time: afternoon
Date: September 20, 2018
Place: Granada, Spain

Would you like to learn about interactive visualization of brain connectivity for neurosurgical research? Are you interested in sharing software tools with a large user community with hundreds of downloads per day? Do you like python programming? Do you want to cluster fiber tracts? If so, come to the SlicerDMRI tutorial.

SlicerDMRI is an open-source project for diffusion magnetic resonance imaging software in 3D Slicer.

We will offer a hands-on overview of both interactive and automated diffusion MRI tools, and an initial introduction to Slicer programming.

How to prepare

• Bring your laptop so you can follow the hands-on guide. Windows, Mac, and Linux operating systems are supported.
• Download 3D Slicer 4.9 NIGHTLY version from this page. (The nightly should be downloaded after Sept 10.)
• Install the following 3D Slicer extensions: SlicerDMRI. (Note that UKFTractography will also be installed as a dependency.) Extensions are available in the Extension Manager from the View menu of 3D Slicer.
• Download, unpack and install whitematteranalysis for your operating system from here (Download links: MacOS, Linux, Windows; file size ~350 MB). Follow the instructions in the README.txt file (for example MacOS/whitematteranalysis/README.txt).
• Download the tutorial data package here: choose based on your operating system and download the Data folder.
• Tutorial slides can be downloaded:
  • Tutorial introduction
  • Hands-on Diffusion MRI Data and Visualization using Medical Reality Modeling Language
  • Hands-on Automated White Matter Parcellation using Anatomically Curated Atlas
  • Hands-On Python Programming: Create Your Own Slicer Module as Fast as You Can
• Install a text editor suitable for Python programming (such as Visual Studio Code).