simnibs.subject_atlas

simnibs.subject_atlas(atlas_name, m2m_dir, hemi='both')

Loads a brain atlas based of the FreeSurfer fsaverage template

Parameters:

• atlas_name ('a2009s', 'DK40' or 'HCP_MMP1') –

  Name of atlas to load

  ’a2009s’: Destrieux atlas (FreeSurfer v4.5, aparc.a2009s) Cite: Destrieux, C. Fischl, B. Dale, A., Halgren, E. A sulcal depth-based anatomical parcellation of the cerebral cortex. Human Brain Mapping (HBM) Congress 2009, Poster #541

  ’DK40’: Desikan-Killiany atlas (FreeSurfer, aparc.a2005s) Cite: Desikan RS, S�gonne F, Fischl B, Quinn BT, Dickerson BC, Blacker D, Buckner RL, Dale AM, Maguire RP, Hyman BT, Albert MS, Killiany RJ. An automated labeling system for subdividing the human cerebral cortex on MRI scans into gyral based regions of interest. Neuroimage. 2006 Jul 1;31(3):968-80.

  ’HCP_MMP1’: Human Connectome Project (HCP) Multi-Modal Parcellation Cite: Glasser MF, Coalson TS, Robinson EC, et al. A multi-modal parcellation of human cerebral cortex. Nature. 2016;536(7615):171-178.

• m2m_folder (str) – Path to the m2m_{subject_id} folder, generated during the segmantation

• (optional) (hemi) – Hemisphere to use. In the case of ‘both’, will assume that left hemisphere nodes comes before right hemisphere nodes

Returns:

atlas – Dictionary where atlas[‘region’] = roi

Return type:

dict