shamo 0.3.2

A tool for electromagnetic modelling of the head and sensitivity analysis.

shamo

Constructing accurate subject specific head model is of main interest in the fields of source imaging (EEG/MEG) and brain stimulation (tDCS/tMS). shamo is an open source python package to calculate EEG leadfields, current flows, and electric potential distribution in the head. From a labelled 3D image of the head, the whole process is fully automatized, relying only on a few parameter files, e.g. conductivities (including white matter anisotropy) plus source and electrode locations. Since there is no non-invasive method to measure the electromagnetic (EM) properties of the head tissues, shamo can also be used to assess the sensitivity of the EM head model to these parameters.

Install

Before installing shamo, make sure to install the dependencies.

Once done, you can either install it from PyPI:

python3 -m pip install shamo

or from source:

git clone https://github.com/CyclotronResearchCentre/shamo
cd shamo
python3 setup.py install

shamo is also available on docker hub in four different images:

• python-dev and jupyter-dev provide the latest build from the develop branch.
• python-{tag} and jupyter-{tag} provide builds for corresponding releases. The python images provide a python interpreter with shamo installed where thejupyter images also provide a jupyter lab server.

For more information, see the documentation.