amnsbr/laminar_organization repository overview

This container includes the data and code associated with the paper "The regional variation of laminar thickness in the human isocortex is related to cortical hierarchy and inter-regional connectivity", Saberi et al. It can be used to reproduce our published results but also to perform further analyses on the BigBrain laminar thickness & density data as well as the other relevant data.

To run the Docker image, follow these steps:

1. Install Docker on your computer (if not already installed).
2. Pull the amnsbr/laminar_organization Docker image from Docker Hub by running the following command: docker pull amnsbr/laminar_organization
3. Run the Docker container by running the following command: docker run -it -p 8888:8888 --privileged amnsbr/laminar_organization. This will start the Docker container, which opens a Jupyter Notebook instance that allows you to run the analyses. Note that the Jupyter will use port 8888, therefore this port must be free.

The --privileged flag is needed for functions that require BigBrainWarp (e.g. human-macaque surface transformation). Please be aware that these functions do not work properly on Macs with M processors.