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- freesurfer-stats
- ================
- TODO add badges
- Python Library to Read FreeSurfer's cortical parcellation anatomical statistics
- Freesurfer https://surfer.nmr.mgh.harvard.edu/
- Install
- -------
- .. code:: sh
- pip3 install --user freesurfer-stats
- Releases follow the `semantic versioning <https://semver.org/>` scheme.
- Usage
- -----
- .. code:: python
- >>> from freesurfer_stats import CorticalParcellationStats
- >>> stats = CorticalParcellationStats.read('tests/subjects/fabian/stats/lh.aparc.DKTatlas.stats')
- >>> stats.headers['CreationTime'].isoformat()
- '2019-05-09T21:05:54+00:00'
- >>> stats.headers['cvs_version']
- 'Id: mris_anatomical_stats.c,v 1.79 2016/03/14 15:15:34 greve Exp'
- >>> stats.headers['cmdline'][:64]
- 'mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label'
- >>> stats.hemisphere
- 'left'
- >>> stats.whole_brain_measurements['estimated_total_intracranial_volume_mm^3']
- 1670487.274486
- >>> stats.whole_brain_measurements['white_surface_total_area_mm^2']
- 98553.0
- >>> stats.structure_measurements[['Structure Name', 'Surface Area (mm^2)', 'Gray Matter Volume (mm^3)']].head()
- Structure Name Surface Area (mm^2) Gray Matter Volume (mm^3)
- 0 caudalanteriorcingulate 1472 4258
- 1 caudalmiddlefrontal 3039 8239
- 2 cuneus 2597 6722
- 3 entorhinal 499 2379
- 4 fusiform 3079 9064
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