Fabian Peter Hammerle
42be0083ef
CorticalParcellationStats: changed type of attribute `whole_brain_measurements` to `pandas.DataFrame`
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4 年 前 | |
|---|---|---|
| freesurfer_stats | 4 年 前 | |
| tests | 4 年 前 | |
| .gitignore | 4 年 前 | |
| .pylintrc | 4 年 前 | |
| .style.yapf | 4 年 前 | |
| Pipfile | 4 年 前 | |
| Pipfile.lock | 4 年 前 | |
| README.rst | 4 年 前 | |
| setup.py | 4 年 前 |
README.rst
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 ` 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']
0 1.670487e+06
Name: estimated_total_intracranial_volume_mm^3, dtype: float64
>>> stats.whole_brain_measurements['white_surface_total_area_mm^2']
0 98553
Name: white_surface_total_area_mm^2, dtype: int64
>>> 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
================
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 ` 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']
0 1.670487e+06
Name: estimated_total_intracranial_volume_mm^3, dtype: float64
>>> stats.whole_brain_measurements['white_surface_total_area_mm^2']
0 98553
Name: white_surface_total_area_mm^2, dtype: int64
>>> 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