Documentation update

muscbridge · Jan 13, 2023 · 4cc7761 · 4cc7761
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diff --git a/docs/source/reference/pydesigner_args.rst b/docs/source/reference/pydesigner_args.rst
@@ -65,7 +65,7 @@ with the following flags.
 
 --nofit             Performs preprocessing only, disables DTI/DKI parameter extraction
 
---noakc             Disables brute forced kurtosis tensor outlier rejection
+--akc               Performs brute forced kurtosis tensor outlier rejection
 
 --nooutliers        Disables IRLLS outlier detection
 

diff --git a/docs/source/reference/pydesigner_files.rst b/docs/source/reference/pydesigner_files.rst
@@ -101,9 +101,9 @@ The list of ever possible output file is given in the table below.
 |                                     | the mean diffusivity (MD) is three times the trace       |
 |                                     | [MD 3 * trace ]                                          |
 +-------------------------------------+----------------------------------------------------------+
-| :code:`dti_fodf.nii`                | DTI ODFs from spherical harmonic expansion (4d nifti)    |
+| :code:`dti_odf.nii`                 | DTI ODFs from spherical harmonic expansion (4d nifti)    |
 +-------------------------------------+----------------------------------------------------------+
-| :code:`dti_fodf.fib`                | DTI ODFs prepared for DSI Studio's tractography (fib)    |
+| :code:`dti_dsistudio.fib`           | DTI ODFs prepared for DSI Studio's tractography (fib)    |
 +-------------------------------------+----------------------------------------------------------+
 | :code:`dki_ak.nii`                  | axial kurtosis map (3 nifti)                             |
 +-------------------------------------+----------------------------------------------------------+
@@ -117,9 +117,9 @@ The list of ever possible output file is given in the table below.
 |                                     | mean kurtosis tensor (3d nifti); alternative calculation |
 |                                     | for mean kurtosis                                        |
 +-------------------------------------+----------------------------------------------------------+
-| :code:`dki_fodf.nii`                | DKI ODFs from spherical harmonic expansion (4d nifti)    |
+| :code:`dki_odf.nii`                 | DKI ODFs from spherical harmonic expansion (4d nifti)    |
 +-------------------------------------+----------------------------------------------------------+
-| :code:`dki_fodf.fib`                | DKI ODFs prepared for DSI Studio's tractography (fib)    |
+| :code:`dki_dsistudio.fib`           | DKI ODFs prepared for DSI Studio's tractography (fib)    |
 +-------------------------------------+----------------------------------------------------------+
 | :code:`DT.nii`                      | diffusion tensor (4d nifti; 6 three-dimensional volumes) |
 +-------------------------------------+----------------------------------------------------------+
@@ -131,9 +131,9 @@ The list of ever possible output file is given in the table below.
 +-------------------------------------+----------------------------------------------------------+
 | :code:`fbi_faa.nii`                 | axonal fractional anisotropy (3d nifti)                  |
 +-------------------------------------+----------------------------------------------------------+
-| :code:`fbi_fodf.nii`                | FBI ODFs from spherical harmonic expansion (4d nifti)    |
+| :code:`fbi_odf.nii`                | FBI ODFs from spherical harmonic expansion (4d nifti)    |
 +-------------------------------------+----------------------------------------------------------+
-| :code:`fbi_fodf.fib`                | FBI ODFs prepared for DSI Studio's tractography (fib)    |
+| :code:`fbi_dsistudio.fib`           | FBI ODFs prepared for DSI Studio's tractography (fib)    |
 +-------------------------------------+----------------------------------------------------------+
 | :code:`fbwm_awf.nii`                | axonal water fraction (3d nifti)                         |
 +-------------------------------------+----------------------------------------------------------+