/visual-white-matter

Application of diffusion MRI and fiber tractography to vision science

Primary LanguageJupyter Notebook

Examples of diffusion MRI analysis for vision science.

Instructions

Click on this link to launch the binder:

Binder

To run these notebooks, you will need to install the IPython software, as well as dipy.

One way to install these is by using the (free) Anaconda software distribution:

  • Go to the Anaconda website and follow the instructions therein to download and install the distribution for your platform.

  • To install dipy and all the other dependencies, type:

      conda install scikit-learn vtk ipython pip
  conda install -c conda-forge dipy

    At a terminal/shell window. This should download and install all of the required software dependencies.

Once you have followed these instructions, you should have all the software needed installed on your computer. To start running the notebooks, change the working directory of your terminal to the directory where you have downloaded the notebook files (using cd) and type:

jupyter notebook

A browser window should open with a list of notebook files. Start by reading the index notebook and follow the instructions from there.

Thanks to the Binder system, you can also run the live notebooks without installing the software by clicking on the following badge:

Binder

License

The materials in this repository are available under the Creative Commons attribution license:

CC-BY