{
    "info": {
        "author": "Fabian Peter Hammerle",
        "author_email": "fabian@hammerle.me",
        "bugtrack_url": null,
        "classifiers": [
            "Development Status :: 3 - Alpha",
            "Intended Audience :: Healthcare Industry",
            "Intended Audience :: Science/Research",
            "Programming Language :: Python :: 3.5",
            "Programming Language :: Python :: 3.6",
            "Programming Language :: Python :: 3.7",
            "Topic :: Scientific/Engineering :: Information Analysis",
            "Topic :: Scientific/Engineering :: Medical Science Apps.",
            "Topic :: Utilities"
        ],
        "description": "freesurfer-stats\n================\n\n.. image:: https://travis-ci.org/fphammerle/freesurfer-stats.svg?branch=master\n   :target: https://travis-ci.org/fphammerle/freesurfer-stats\n.. image:: https://coveralls.io/repos/github/fphammerle/freesurfer-stats/badge.svg?branch=master\n   :target: https://coveralls.io/github/fphammerle/freesurfer-stats?branch=master\n.. image:: https://img.shields.io/pypi/v/freesurfer-stats.svg\n   :target: https://pypi.org/project/freesurfer-stats/#history\n.. image:: https://img.shields.io/pypi/pyversions/freesurfer-stats.svg\n   :target: https://pypi.org/project/freesurfer-stats/\n\nPython Library to Read FreeSurfer's Cortical Parcellation Anatomical Statistics\n`subject/stats/[rl]h.aparc.*.stats`\n\nFreesurfer https://surfer.nmr.mgh.harvard.edu/\n\nInstall\n-------\n\n.. code:: sh\n\n    pip3 install --user freesurfer-stats\n\nReleases follow the `semantic versioning <https://semver.org/>` scheme.\n\nUsage\n-----\n\n.. code:: python\n\n    >>> from freesurfer_stats import CorticalParcellationStats\n    >>> stats = CorticalParcellationStats.read('tests/subjects/fabian/stats/lh.aparc.DKTatlas.stats')\n    >>> stats.headers['subjectname']\n    'fabian'\n    >>> stats.headers['CreationTime'].isoformat()\n    '2019-05-09T21:05:54+00:00'\n    >>> stats.headers['cvs_version']\n    'Id: mris_anatomical_stats.c,v 1.79 2016/03/14 15:15:34 greve Exp'\n    >>> stats.headers['cmdline'][:64]\n    'mris_anatomical_stats -th3 -mgz -cortex ../label/lh.cortex.label'\n    >>> stats.hemisphere\n    'left'\n    >>> stats.whole_brain_measurements['estimated_total_intracranial_volume_mm^3']\n    0    1.670487e+06\n    Name: estimated_total_intracranial_volume_mm^3, dtype: float64\n    >>> stats.whole_brain_measurements['white_surface_total_area_mm^2']\n    0    98553\n    Name: white_surface_total_area_mm^2, dtype: int64\n    >>> stats.structural_measurements[['structure_name', 'surface_area_mm^2',\n    ...                                'gray_matter_volume_mm^3']].head()\n                structure_name  surface_area_mm^2  gray_matter_volume_mm^3\n    0  caudalanteriorcingulate               1472                     4258\n    1      caudalmiddlefrontal               3039                     8239\n    2                   cuneus               2597                     6722\n    3               entorhinal                499                     2379\n    4                 fusiform               3079                     9064\n\nLoad Multiple Stats Files\n~~~~~~~~~~~~~~~~~~~~~~~~~\n\n.. code:: python\n\n    >>> import glob, pandas\n    >>> from freesurfer_stats import CorticalParcellationStats\n    >>> def load_whole_brain_measurements(stats_path) -> pandas.DataFrame:\n    ...     stats = CorticalParcellationStats.read(stats_path)\n    ...     stats.whole_brain_measurements['subject'] = stats.headers['subjectname']\n    ...     stats.whole_brain_measurements['source_basename'] = os.path.basename(stats_path)\n    ...     stats.whole_brain_measurements['hemisphere'] = stats.hemisphere\n    ...     return stats.whole_brain_measurements\n    ...\n    >>> whole_brain_measurements = pandas.concat(\n    ...     map(load_whole_brain_measurements, glob.glob('tests/subjects/fabian/stats/*h.aparc*.stats')),\n    ...     sort=False)\n    >>> whole_brain_measurements.reset_index(drop=True, inplace=True)\n    >>> whole_brain_measurements[['subject', 'source_basename', 'hemisphere',\n    ...                           'white_surface_total_area_mm^2', 'pial_surface_total_area_mm^2']]\n      subject          source_basename hemisphere  white_surface_total_area_mm^2  pial_surface_total_area_mm^2\n    0  fabian  lh.aparc.DKTatlas.stats       left                        98553.0                           NaN\n    1  fabian           rh.aparc.stats      right                        99468.9                           NaN\n    2  fabian    rh.aparc.a2009s.stats      right                        99494.9                           NaN\n    3  fabian  rh.aparc.DKTatlas.stats      right                        99494.9                           NaN\n    4  fabian           lh.aparc.stats       left                        98536.5                           NaN\n    5  fabian      lh.aparc.pial.stats       left                            NaN                      118601.0\n    6  fabian      rh.aparc.pial.stats      right                            NaN                      121260.0\n    7  fabian    lh.aparc.a2009s.stats       left                        98553.0                           NaN\n    >>>\n\n\n",
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        "keywords": "anatomy,aparc,area,brain,cortex,dataframe,freesurfer,mris_anatomical_stats,neuroimaging,pandas,parcellation,reader,statistics,surface,volume",
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        "name": "freesurfer-stats",
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        "summary": "Python Library to Read FreeSurfer's cortical parcellation anatomical statistics",
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