Python tools for laminar analysis of the cortical sheet.

ATTENTION : laminar_python is no longer actively developed, check out Nighres instead!

This repository contains Python versions of several modules of CBS Tools that are useful for laminar analysis. [1-3]

How to use laminar_python

1. Make sure required Python libraries are installed

pip install numpy argparse nibabel

2. Clone this repository to a directory that is in your PYTHONPATH, e.g

cd /home/workspace
git clone https://github.com/juhuntenburg/laminar_python.git
export PYTHONPATH=$PYTHONPATH:/home/workspace/

You should now be able to import laminar_python in Python, try:

import laminar_python

You can find an example showcasing the different functions in the laminar_python_demo.ipynb notebook.

References

[1] Bazin et al. (2014). A computational framework for ultra-high resolution cortical segmentation at 7Tesla. http://doi.org/10.1016/j.neuroimage.2013.03.077

[2] https://github.com/piloubazin/cbstools-public

[3] Waehnert et al. (2014). Anatomically motivated modeling of cortical laminae. http://doi.org/10.1016/j.neuroimage.2013.03.078

Current release