Mercurial > repos > greg > diffusion_signal_reconstruction

comparison diffusion_signal_reconstruction.py @ 3:85df19d98cd0 draft

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author greg
date Sun, 05 Nov 2017 09:43:29 -0500
parents fe569aad237c
children dc700deb06c1
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2:6228b82e2eb5 3:85df19d98cd0
19 19
20 # http://nipy.org/dipy/examples_built/reconst_dti.html#example-reconst-dti 20 # http://nipy.org/dipy/examples_built/reconst_dti.html#example-reconst-dti
21 parser = argparse.ArgumentParser() 21 parser = argparse.ArgumentParser()
22 parser.add_argument('--drmi_dataset', dest='drmi_dataset', help='Input dataset') 22 parser.add_argument('--drmi_dataset', dest='drmi_dataset', help='Input dataset')
23 parser.add_argument('--output_nifti1_fa', dest='output_nifti1_fa', help='Output fractional anisotropy Nifti1 dataset') 23 parser.add_argument('--output_nifti1_fa', dest='output_nifti1_fa', help='Output fractional anisotropy Nifti1 dataset')
24 parser.add_argument('--output_nifti1_evecs', dest='output_nifti1_fevecs', help='Output eigen vectors Nifti1 dataset') 24 parser.add_argument('--output_nifti1_evecs', dest='output_nifti1_evecs', help='Output eigen vectors Nifti1 dataset')
25 parser.add_argument('--output_nifti1_md', dest='output_nifti1_md', help='Output mean diffusivity Nifti1 dataset') 25 parser.add_argument('--output_nifti1_md', dest='output_nifti1_md', help='Output mean diffusivity Nifti1 dataset')
26 parser.add_argument('--output_nifti1_rgb', dest='output_nifti1_rgb', help='Output RGB-map Nifti1 dataset') 26 parser.add_argument('--output_nifti1_rgb', dest='output_nifti1_rgb', help='Output RGB-map Nifti1 dataset')
27 parser.add_argument('--output_png_ellipsoids', dest='output_png_ellipsoids', help='Output ellipsoids PNG dataset') 27 parser.add_argument('--output_png_ellipsoids', dest='output_png_ellipsoids', help='Output ellipsoids PNG dataset')
28 parser.add_argument('--output_png_odfs', dest='output_png_odfs', help='Output orientation distribution functions PNG dataset') 28 parser.add_argument('--output_png_odfs', dest='output_png_odfs', help='Output orientation distribution functions PNG dataset')
29 parser.add_argument('--output_png_middle_axial_slice', dest='output_png_middle_axial_slice', help='Output middle axial slice PNG dataset') 29 parser.add_argument('--output_png_middle_axial_slice', dest='output_png_middle_axial_slice', help='Output middle axial slice PNG dataset')