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Python package to access a cacophony of neuro-imaging file formats

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.. Following contents should be from LONG_DESCRIPTION in nibabel/info.py

======= NiBabel

Read / write access to some common neuroimaging file formats

This package provides read +/- write access to some common medical and neuroimaging file formats, including: ANALYZE_ (plain, SPM99, SPM2 and later), GIFTI_, NIfTI1_, NIfTI2_, CIFTI-2, MINC1, MINC2_, AFNI BRIK/HEAD, MGH and ECAT_ as well as Philips PAR/REC. We can read and write FreeSurfer_ geometry, annotation and morphometry files. There is some very limited support for DICOM_. NiBabel is the successor of PyNIfTI_.

.. _ANALYZE: http://www.grahamwideman.com/gw/brain/analyze/formatdoc.htm .. _AFNI BRIK/HEAD: https://afni.nimh.nih.gov/pub/dist/src/README.attributes .. _NIfTI1: http://nifti.nimh.nih.gov/nifti-1/ .. _NIfTI2: http://nifti.nimh.nih.gov/nifti-2/ .. _CIFTI-2: https://www.nitrc.org/projects/cifti/ .. _MINC1: https://en.wikibooks.org/wiki/MINC/Reference/MINC1_File_Format_Reference .. _MINC2: https://en.wikibooks.org/wiki/MINC/Reference/MINC2.0_File_Format_Reference .. _PyNIfTI: http://niftilib.sourceforge.net/pynifti/ .. _GIFTI: https://www.nitrc.org/projects/gifti .. _MGH: https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/MghFormat .. _ECAT: http://xmedcon.sourceforge.net/Docs/Ecat .. _Freesurfer: https://surfer.nmr.mgh.harvard.edu .. _DICOM: http://medical.nema.org/

The various image format classes give full or selective access to header (meta) information and access to the image data is made available via NumPy arrays.

Website

Current documentation on nibabel can always be found at the NIPY nibabel website <http://nipy.org/nibabel>_.

Mailing Lists

Please send any questions or suggestions to the neuroimaging mailing list <https://mail.python.org/mailman/listinfo/neuroimaging>_.

Code

Install nibabel with::

pip install nibabel

You may also be interested in:

  • the nibabel code repository_ on Github;
  • documentation_ for all releases and current development tree;
  • download the current release_ from pypi;
  • download current development version_ as a zip file;
  • downloads of all available releases_.

.. _nibabel code repository: https://github.com/nipy/nibabel .. _Documentation: http://nipy.org/nibabel .. _current release: https://pypi.python.org/pypi/nibabel .. _current development version: https://github.com/nipy/nibabel/archive/master.zip .. _available releases: https://github.com/nipy/nibabel/releases

License

Nibabel is licensed under the terms of the MIT license. Some code included with nibabel is licensed under the BSD license. Please see the COPYING file in the nibabel distribution.

Citing nibabel

Please see the available releases_ for the release of nibabel that you are using. Recent releases have a Zenodo_ Digital Object Identifier_ badge at the top of the release notes. Click on the badge for more information.

.. _zenodo: https://zenodo.org .. _Digital Object Identifier: https://en.wikipedia.org/wiki/Digital_object_identifier