Workshop materials for using BigBrain atlas of cortical layers
To download the repo with the notebooks and data,
git clone https://github.com/kwagstyl/cortical_layers_tutorial
For visualising the data you will also need to install matplotlib_surface_plotting in python 3:
pip install matplotlib-surface-plotting
Then you should be ready to go!
Example notebooks with ideas for how to interact with the data can be found in notebooks
- Cortical thickness - visualisation and analyses of cortical and laminar thickness data
- Cortical profiles - visualisation and analyses of intensity profiles
- Cortical segmentation - voxel-wise segmentation of cortical layers in BigBrain.
Example solutions to the workshop tasks can be found in the solution_ notebooks.
Spotted a mistake or have a questions? Please message me, create an issue or email me on konrad dot wagstyl at gmail dot com
To find out more about the atlas or to cite the dataset in your work, please use:
Wagstyl, K., et al (2020). BigBrain 3D atlas of cortical layers: Cortical and laminar thickness gradients diverge in sensory and motor cortices. PLoS Biology, 18(4), e3000678. http://dx.doi.org/10.1371/journal.pbio.3000678