.. AUTO-GENERATED FILE -- DO NOT EDIT! :mod:`io` ========= .. automodule:: dipy.io .. currentmodule:: dipy.io .. autosummary:: Dpy load_pickle orientation_from_string orientation_to_string ornt_mapping read_bvals_bvecs read_bvec_file reorient_on_axis reorient_vectors save_pickle .. AUTO-GENERATED FILE -- DO NOT EDIT! Module: :mod:`io.bvectxt` ------------------------- .. automodule:: dipy.io.bvectxt .. currentmodule:: dipy.io.bvectxt .. autosummary:: orientation_from_string orientation_to_string ornt_mapping read_bvec_file reorient_on_axis reorient_vectors splitext .. AUTO-GENERATED FILE -- DO NOT EDIT! Module: :mod:`io.dpy` --------------------- .. automodule:: dipy.io.dpy .. currentmodule:: dipy.io.dpy .. autosummary:: Dpy Streamlines .. AUTO-GENERATED FILE -- DO NOT EDIT! Module: :mod:`io.gradients` --------------------------- .. automodule:: dipy.io.gradients .. currentmodule:: dipy.io.gradients .. autosummary:: InTemporaryDirectory read_bvals_bvecs splitext .. AUTO-GENERATED FILE -- DO NOT EDIT! Module: :mod:`io.image` ----------------------- .. automodule:: dipy.io.image .. currentmodule:: dipy.io.image .. autosummary:: load_nifti save_nifti save_qa_metric .. AUTO-GENERATED FILE -- DO NOT EDIT! Module: :mod:`io.peaks` ----------------------- .. automodule:: dipy.io.peaks .. currentmodule:: dipy.io.peaks .. autosummary:: PeaksAndMetrics Sphere load_peaks peaks_to_niftis reshape_peaks_for_visualization save_nifti save_peaks .. AUTO-GENERATED FILE -- DO NOT EDIT! Module: :mod:`io.pickles` ------------------------- .. automodule:: dipy.io.pickles .. currentmodule:: dipy.io.pickles .. autosummary:: load_pickle save_pickle .. AUTO-GENERATED FILE -- DO NOT EDIT! Module: :mod:`io.stateful_tractogram` ------------------------------------- .. automodule:: dipy.io.stateful_tractogram .. currentmodule:: dipy.io.stateful_tractogram .. autosummary:: PerArrayDict PerArraySequenceDict Space StatefulTractogram Streamlines Tractogram itemgetter product apply_affine bisect deepcopy get_reference_info .. AUTO-GENERATED FILE -- DO NOT EDIT! Module: :mod:`io.streamline` ---------------------------- .. automodule:: dipy.io.streamline .. currentmodule:: dipy.io.streamline .. autosummary:: Dpy Space StatefulTractogram Tractogram create_tractogram_header deepcopy detect_format is_header_compatible load_dpy load_fib load_tck load_tractogram load_trk load_vtk load_vtk_streamlines save_dpy save_fib save_tck save_tractogram save_trk save_vtk save_vtk_streamlines .. AUTO-GENERATED FILE -- DO NOT EDIT! Module: :mod:`io.utils` ----------------------- .. automodule:: dipy.io.utils .. currentmodule:: dipy.io.utils .. autosummary:: Nifti1Image create_nifti_header create_tractogram_header decfa decfa_to_float detect_format get_reference_info is_header_compatible make5d nifti1_symmat .. AUTO-GENERATED FILE -- DO NOT EDIT! Module: :mod:`io.vtk` --------------------- .. automodule:: dipy.io.vtk .. currentmodule:: dipy.io.vtk .. autosummary:: load_polydata load_vtk_streamlines optional_package save_polydata save_vtk_streamlines setup_module transform_streamlines .. currentmodule:: dipy.io :class:`Dpy` ~~~~~~~~~~~~ .. autoclass:: Dpy :members: :undoc-members: :show-inheritance: .. automethod:: __init__ load_pickle ~~~~~~~~~~~ .. autofunction:: load_pickle orientation_from_string ~~~~~~~~~~~~~~~~~~~~~~~ .. autofunction:: orientation_from_string orientation_to_string ~~~~~~~~~~~~~~~~~~~~~ .. autofunction:: orientation_to_string ornt_mapping ~~~~~~~~~~~~ .. autofunction:: ornt_mapping read_bvals_bvecs ~~~~~~~~~~~~~~~~ .. autofunction:: read_bvals_bvecs read_bvec_file ~~~~~~~~~~~~~~ .. autofunction:: read_bvec_file reorient_on_axis ~~~~~~~~~~~~~~~~ .. autofunction:: reorient_on_axis reorient_vectors ~~~~~~~~~~~~~~~~ .. autofunction:: reorient_vectors save_pickle ~~~~~~~~~~~ .. autofunction:: save_pickle .. currentmodule:: dipy.io.bvectxt orientation_from_string ~~~~~~~~~~~~~~~~~~~~~~~ .. autofunction:: orientation_from_string orientation_to_string ~~~~~~~~~~~~~~~~~~~~~ .. autofunction:: orientation_to_string ornt_mapping ~~~~~~~~~~~~ .. autofunction:: ornt_mapping read_bvec_file ~~~~~~~~~~~~~~ .. autofunction:: read_bvec_file reorient_on_axis ~~~~~~~~~~~~~~~~ .. autofunction:: reorient_on_axis reorient_vectors ~~~~~~~~~~~~~~~~ .. autofunction:: reorient_vectors splitext ~~~~~~~~ .. autofunction:: splitext .. currentmodule:: dipy.io.dpy :class:`Dpy` ~~~~~~~~~~~~ .. autoclass:: Dpy :members: :undoc-members: :show-inheritance: .. automethod:: __init__ :class:`Streamlines` ~~~~~~~~~~~~~~~~~~~~ .. autoclass:: Streamlines :members: :undoc-members: :show-inheritance: .. automethod:: __init__ .. currentmodule:: dipy.io.gradients :class:`InTemporaryDirectory` ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ .. autoclass:: InTemporaryDirectory :members: :undoc-members: :show-inheritance: .. automethod:: __init__ read_bvals_bvecs ~~~~~~~~~~~~~~~~ .. autofunction:: read_bvals_bvecs splitext ~~~~~~~~ .. autofunction:: splitext .. currentmodule:: dipy.io.image load_nifti ~~~~~~~~~~ .. autofunction:: load_nifti save_nifti ~~~~~~~~~~ .. autofunction:: save_nifti save_qa_metric ~~~~~~~~~~~~~~ .. autofunction:: save_qa_metric .. currentmodule:: dipy.io.peaks :class:`PeaksAndMetrics` ~~~~~~~~~~~~~~~~~~~~~~~~ .. autoclass:: PeaksAndMetrics :members: :undoc-members: :show-inheritance: .. automethod:: __init__ :class:`Sphere` ~~~~~~~~~~~~~~~ .. autoclass:: Sphere :members: :undoc-members: :show-inheritance: .. automethod:: __init__ load_peaks ~~~~~~~~~~ .. autofunction:: load_peaks peaks_to_niftis ~~~~~~~~~~~~~~~ .. autofunction:: peaks_to_niftis reshape_peaks_for_visualization ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ .. autofunction:: reshape_peaks_for_visualization save_nifti ~~~~~~~~~~ .. autofunction:: save_nifti save_peaks ~~~~~~~~~~ .. autofunction:: save_peaks .. currentmodule:: dipy.io.pickles load_pickle ~~~~~~~~~~~ .. autofunction:: load_pickle save_pickle ~~~~~~~~~~~ .. autofunction:: save_pickle .. currentmodule:: dipy.io.stateful_tractogram :class:`PerArrayDict` ~~~~~~~~~~~~~~~~~~~~~ .. autoclass:: PerArrayDict :members: :undoc-members: :show-inheritance: .. automethod:: __init__ :class:`PerArraySequenceDict` ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ .. autoclass:: PerArraySequenceDict :members: :undoc-members: :show-inheritance: .. automethod:: __init__ :class:`Space` ~~~~~~~~~~~~~~ .. autoclass:: Space :members: :undoc-members: :show-inheritance: .. automethod:: __init__ :class:`StatefulTractogram` ~~~~~~~~~~~~~~~~~~~~~~~~~~~ .. autoclass:: StatefulTractogram :members: :undoc-members: :show-inheritance: .. automethod:: __init__ :class:`Streamlines` ~~~~~~~~~~~~~~~~~~~~ .. autoclass:: Streamlines :members: :undoc-members: :show-inheritance: .. automethod:: __init__ :class:`Tractogram` ~~~~~~~~~~~~~~~~~~~ .. autoclass:: Tractogram :members: :undoc-members: :show-inheritance: .. automethod:: __init__ :class:`itemgetter` ~~~~~~~~~~~~~~~~~~~ .. autoclass:: itemgetter :members: :undoc-members: :show-inheritance: .. automethod:: __init__ :class:`product` ~~~~~~~~~~~~~~~~ .. autoclass:: product :members: :undoc-members: :show-inheritance: .. automethod:: __init__ apply_affine ~~~~~~~~~~~~ .. autofunction:: apply_affine bisect ~~~~~~ .. autofunction:: bisect deepcopy ~~~~~~~~ .. autofunction:: deepcopy get_reference_info ~~~~~~~~~~~~~~~~~~ .. autofunction:: get_reference_info .. currentmodule:: dipy.io.streamline :class:`Dpy` ~~~~~~~~~~~~ .. autoclass:: Dpy :members: :undoc-members: :show-inheritance: .. automethod:: __init__ :class:`Space` ~~~~~~~~~~~~~~ .. autoclass:: Space :members: :undoc-members: :show-inheritance: .. automethod:: __init__ :class:`StatefulTractogram` ~~~~~~~~~~~~~~~~~~~~~~~~~~~ .. autoclass:: StatefulTractogram :members: :undoc-members: :show-inheritance: .. automethod:: __init__ :class:`Tractogram` ~~~~~~~~~~~~~~~~~~~ .. autoclass:: Tractogram :members: :undoc-members: :show-inheritance: .. automethod:: __init__ create_tractogram_header ~~~~~~~~~~~~~~~~~~~~~~~~ .. autofunction:: create_tractogram_header deepcopy ~~~~~~~~ .. autofunction:: deepcopy detect_format ~~~~~~~~~~~~~ .. autofunction:: detect_format is_header_compatible ~~~~~~~~~~~~~~~~~~~~ .. autofunction:: is_header_compatible load_dpy ~~~~~~~~ .. autofunction:: load_dpy load_fib ~~~~~~~~ .. autofunction:: load_fib load_tck ~~~~~~~~ .. autofunction:: load_tck load_tractogram ~~~~~~~~~~~~~~~ .. autofunction:: load_tractogram load_trk ~~~~~~~~ .. autofunction:: load_trk load_vtk ~~~~~~~~ .. autofunction:: load_vtk load_vtk_streamlines ~~~~~~~~~~~~~~~~~~~~ .. autofunction:: load_vtk_streamlines save_dpy ~~~~~~~~ .. autofunction:: save_dpy save_fib ~~~~~~~~ .. autofunction:: save_fib save_tck ~~~~~~~~ .. autofunction:: save_tck save_tractogram ~~~~~~~~~~~~~~~ .. autofunction:: save_tractogram save_trk ~~~~~~~~ .. autofunction:: save_trk save_vtk ~~~~~~~~ .. autofunction:: save_vtk save_vtk_streamlines ~~~~~~~~~~~~~~~~~~~~ .. autofunction:: save_vtk_streamlines .. currentmodule:: dipy.io.utils :class:`Nifti1Image` ~~~~~~~~~~~~~~~~~~~~ .. autoclass:: Nifti1Image :members: :undoc-members: :show-inheritance: .. automethod:: __init__ create_nifti_header ~~~~~~~~~~~~~~~~~~~ .. autofunction:: create_nifti_header create_tractogram_header ~~~~~~~~~~~~~~~~~~~~~~~~ .. autofunction:: create_tractogram_header decfa ~~~~~ .. autofunction:: decfa decfa_to_float ~~~~~~~~~~~~~~ .. autofunction:: decfa_to_float detect_format ~~~~~~~~~~~~~ .. autofunction:: detect_format get_reference_info ~~~~~~~~~~~~~~~~~~ .. autofunction:: get_reference_info is_header_compatible ~~~~~~~~~~~~~~~~~~~~ .. autofunction:: is_header_compatible make5d ~~~~~~ .. autofunction:: make5d nifti1_symmat ~~~~~~~~~~~~~ .. autofunction:: nifti1_symmat .. currentmodule:: dipy.io.vtk load_polydata ~~~~~~~~~~~~~ .. autofunction:: load_polydata load_vtk_streamlines ~~~~~~~~~~~~~~~~~~~~ .. autofunction:: load_vtk_streamlines optional_package ~~~~~~~~~~~~~~~~ .. autofunction:: optional_package save_polydata ~~~~~~~~~~~~~ .. autofunction:: save_polydata save_vtk_streamlines ~~~~~~~~~~~~~~~~~~~~ .. autofunction:: save_vtk_streamlines setup_module ~~~~~~~~~~~~ .. autofunction:: setup_module transform_streamlines ~~~~~~~~~~~~~~~~~~~~~ .. autofunction:: transform_streamlines