lameg 0.0.6

A toolbox for laminar inference with MEG

Toolbox for laminar inference with MEG, powered by FreeSurfer and SPM

Operating system

• Windows: Tested on WSL (using Ubuntu 24.04.1), follow instructions here

• Mac: May work, not tested

• Linux: Tested on Ubuntu and Debian

Requirements

• FreeSurfer v6.0

• Python version 3.7

• Anaconda (or miniconda)

• git

• curl

Installation

1. Install git and curl if needed:

   sudo apt-get install git curl

2. Create a conda environment:

   conda create -n <env name> python=3.7

   replacing <env name> with the name of the environment you would like to create (i.e. ‘lameg’, or the name of your project)

3. Activate the environment:

   conda activate <env name>

   replacing <env name> with name of the environment you created.

4. Install FreeSurfer, following the instructions on this page

5. To install laMEG, run:

   pip install lameg

   This also installs SPM standalone and Matlab runtime, which can take some time depending on your connection speed.

6. Before using, deactivate and reactivate the environment for changes to environment variables to take effect:

   conda deactivate
   conda activate <env name>

7. If you want to run the tutorials, download and extract the test data

Documentation and Tutorials

Once you have installed laMEG, check out the example notebooks, tutorials, and documentation. For guidelines on MRI sequences, head-cast construction, and co-registration, see the wiki

Funding

Supported by the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme grant agreement 864550, and a seed grant from the Fondation pour l’Audition.