ReconstIvimFlow

Parameters

input_files : string

Path to the input volumes. This path may contain wildcards to process multiple inputs at once.

bvalues_files : string

Path to the bvalues files. This path may contain wildcards to use multiple bvalues files at once.

bvectors_files : string

Path to the bvalues files. This path may contain wildcards to use multiple bvalues files at once.

mask_files : string

Path to the input masks. This path may contain wildcards to use multiple masks at once. (default: No mask used)

split_b_D : int, optional

Value to split the bvals to estimate D for the two-stage process of fitting (default 400)

split_b_S0 : int, optional

Value to split the bvals to estimate S0 for the two-stage process of fitting. (default 200)

b0_threshold : int, optional

Threshold value for the b0 bval. (default 0)

save_metrics : variable string, optional

List of metrics to save. Possible values: S0_predicted, perfusion_fraction, D_star, D (default [] (all))

out_dir : string, optional

Output directory (default input file directory)

out_S0_predicted : string, optional

Name of the S0 signal estimated to be saved (default: ‘S0_predicted.nii.gz’)

out_perfusion_fraction : string, optional

Name of the estimated volume fractions to be saved (default ‘perfusion_fraction.nii.gz’)

out_D_star : string, optional

Name of the estimated pseudo-diffusion parameter to be saved (default ‘D_star.nii.gz’)

out_D : string, optional

Name of the estimated diffusion parameter to be saved (default ‘D.nii.gz’)

References