Thanks for the reply! Unfortunately, I already tried to just type in commands like dtifit. However, when I do so it provides the "help" information for the command.
DESKTOP-U4H41O9:~> dtifit
Part of FSL (ID: 5.0.11)
dtifit
Usage:
dtifit -k <filename>
dtifit --verbose
Compulsory arguments (You MUST set one or more of):
-k,--data dti data file
-o,--out Output basename
-m,--mask Bet binary mask file
-r,--bvecs b vectors file
-b,--bvals b values file
Optional arguments (You may optionally specify one or more of):
-V,--verbose switch on diagnostic messages
-h,--help display this message
--cni Input confound regressors
--sse Output sum of squared errors
-w,--wls Fit the tensor with weighted least squares
--kurt Output mean kurtosis map (for multi-shell data)
--kurtdir Output parallel/perpendicular kurtosis maps (for multi-shell data)
--littlebit Only process small area of brain
--save_tensor Save the elements of the tensor
-z,--zmin min z
-Z,--zmax max z
-y,--ymin min y
-Y,--ymax max y
-x,--xmin min x
-X,--xmax max x
--gradnonlin Gradient Nonlinearity Tensor file
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