sct_dmri_compute_dti¶

Compute Diffusion Tensor Images (DTI) using dipy.

usage: sct_dmri_compute_dti -i <file> -bval <file> -bvec <file> [-h]
                            [-method {standard,restore}] [-evecs {0,1}]
                            [-m <file>] [-o <str>] [-v <int>]

MANDATORY ARGMENTS¶

-i: Input 4d file. Example: dmri.nii.gz
-bval: Bvals file. Example: bvals.txt
-bvec: Bvecs file. Example: bvecs.txt

OPTIONAL ARGUMENTS¶

-method

Possible choices: standard, restore

Type of method to calculate the diffusion tensor:

standard: Standard equation [Basser, Biophys J 1994]
restore: Robust fitting with outlier detection [Chang, MRM 2005]

Default: “standard”

-evecs

Possible choices: 0, 1

Output tensor eigenvectors and eigenvalues.

Default: 0

-m

Mask used to compute DTI in for faster processing. Example: mask.nii.gz

-o

Output prefix.

Default: “dti_”

-v

Possible choices: 0, 1, 2

Verbosity. 0: Display only errors/warnings, 1: Errors/warnings + info messages, 2: Debug mode

Default: 1