BrainSuite Training Workshop
NRB Auditorium, Nov 22, 2013, 10.30am – 3.00pm
This page contains information and slides used for the BrainSuite Training Workshop held at the UCLA Neuroscience Research Building on 22 November 2013.
For updated tutorials and data, please see this page: https://brainsuite.org/tutorials/.
- 10.30am‐11.00am Coffee
- 11.00am‐11.05am David Shattuck and Richard Leahy: Welcome
- 11.05am‐11.45am David Shattuck: Cortical Surface Extraction + Demo
- 11.45am‐12.30pm Anand Joshi: Atlas‐Based Registration and Labeling
- 12.30pm‐1.15pm* Hands on Training: Structural Labeling and Analysis
Justin Haldar: Tractography and Connectivity Modeling
Chitresh Bhushan: Processing of Diffusion Data
Hands on Training: Diffusion and Connectivity Analysis
Slides for hands-on: UCLA_BrainSuiteWorkshop_Exercises
Slides available by clicking on the title of the talks in the schedule above. Please remember that food and drinks are *not* allowed in the NRB auditorium. We will have coffee and bagels available in the NRB lobby if you want to join us before the presentations start.
*We did not designate a lunch break, but the hands-on portion would be a suitable time to grab something to eat at one of the nearby eateries (such as Cafe Synapse or the Court of Sciences). If you want to eat your lunch in the NRB lobby, some of us will be available to assist you with the training exercises.
You should bring a computer running either 64-bit Windows or Mac OS X (10.6 or greater) with at least 4GB of RAM.
Please pre-install BrainSuite on your laptop. To do this, you will need to first register (https://brainsuite.org/register/), and then download (https://brainsuite.org/
If you want to run the registration or diffusion processing code, you have to have the correct version of the Matlab Compiler Runtime (MCR) installed. Our code is compiled based on the 2012a release of Matlab, so you have to have the libraries specific to that release. The MCR is free, and you can download it at the following links:
Note: You can install the MCR even if you already have another version of Matlab installed — they will not conflict. Our software will also run best if you install the MCR to its default location.
Mac only: To use the compiled Matlab code, you may be prompted to install X11 (XQuartz) if you do not already have it. With recent security changes on the Mac, you may need to grant permission for SVReg or BDP to run, as these do not have official Apple signatures.
For More Information
Surface Extraction: https://brainsuite.org/processing/surfaceextraction/
Registration and Labeling (SVReg): https://brainsuite.org/processing/svreg/
Diffusion and Tractography (BDP): https://brainsuite.org/processing/diffusion/