Ecog GUI

Ecog GUI is a Python module to localize intracranial electrodes from MRI.

It interactively fits a priori defined grids, strips or rigid array of electrodes to the MRI with a Graphical User Interface.

Its main advantages as compared to current alternatives are:

• it provides the best fits in real time, and can thus help you adjust your locations interactively.
• it can fit curved surfaces, including non-convex ones, but remains realistic thanks to a rigidity constrain.

This is currently an alpha version.

Online Tutorials

Click on the following examples to run the tutorial and results preview in your browser.

• examples/model_displacement.ipynb how the 2D grid/strips are fitted with a rotation and translation to match the 3D locations.
• examples/model_surface.ipynb: how the 2D grid/strips are fitted with a 2nd order polynomial with a constrain on the electrodes local distances, as we know the grid can be flexible but is not elastic.
• examples/gui_mri_ecog.ipynb: try to fit the grid this patient brain. It should take no more than five minutes.

Installation

Clone this repository and install using setup.py:

python setup.py develop --user

Dependencies

The required dependencies to use the software are:

• Python >= 2.7
• setuptools
• Numpy >= 1.6.1
• SciPy >= 0.9
• Scikit-learn >= 0.17
• Nibabel >= 1.1.0
• Matplotlib >= 1.5.1