AFQ.models.dki#
Module Contents#
Functions#
|
Fit the DKI model, save files with derived maps |
|
Create a signal prediction from DKI params |
- AFQ.models.dki.fit_dki(data_files, bval_files, bvec_files, mask=None, min_kurtosis=-1, max_kurtosis=3, out_dir=None, b0_threshold=50)[source]#
Fit the DKI model, save files with derived maps
- Parameters
- data_filesstr or list
Files containing DWI data. If this is a str, that’s the full path to a single file. If it’s a list, each entry is a full path.
- bval_filesstr or list
Equivalent to data_files.
- bvec_filesstr or list
Equivalent to data_files.
- maskndarray, optional
Binary mask, set to True or 1 in voxels to be processed. Default: Process all voxels.
- min_kurtosisfloat, optional
The minimal plausible value of kurtosis. Default: -1.
- max_kurtosisfloat, optional
The maximal plausible value of kurtosis. Default: 3.
- out_dirstr, optional
A full path to a directory to store the maps that get computed. Default: maps get stored in the same directory as the last DWI file in data_files.
- b0_thresholdfloat
- Returns
- file_pathsa dict with the derived maps that were computed and full-paths
- to the files containing these maps.
- AFQ.models.dki.predict(params_file, gtab, S0_file=None, out_dir=None)[source]#
Create a signal prediction from DKI params
- params_filestr
Full path to a file with parameters saved from a DKI fit
- gtabGradientTable object
The gradient table to predict for
- S0_filestr
Full path to a nifti file that contains S0 measurements to incorporate into the prediction. If the file contains 4D data, the volumes that contain the S0 data must be the same as the gtab.b0s_mask.