Pycortex is a software library that allows you to visualize fMRI or other volumetric neuroimaging data on cortical surfaces.
python3 -m venv env # use `virtualenv env` for python 2
source env/bin/activate
pip install -U setuptools wheel numpy cython
pip install -U git+git://github.com/gallantlab/pycortex.git@glrework-merged
This command creates a new virtualenv for pycortex to resolve dependencies. Run source env/bin/activate whenever you need pycortex.
Pycortex is best used with IPython. Install it in your virtualenv using
source env/bin/activate
pip install ipython
To run the pycortex demo,
$ ipython
In [1]: import cortex
In [2]: cortex.webshow(cortex.Volume.random("S1", "fullhead"))
NEW: Massively updated documentation for pycortex is available at https://gallantlab.github.io/. You can find many examples of pycortex features in the pycortex example gallery.
If you use pycortex in published work, please cite the pycortex paper:
Gao JS, Huth AG, Lescroart MD and Gallant JL (2015) Pycortex: an interactive surface visualizer for fMRI. Front. Neuroinform. 9:23. doi: 10.3389/fninf.2015.00023