dtifit: DTI Fitting Procedure from FSL

In neuroconductor-devel/fslr: Wrapper Functions for 'FSL' ('FMRIB' Software Library) from Functional MRI of the Brain ('FMRIB')

Description

Calls dtifit from FSL

Usage

dtifit(
  infile,
  bvecs,
  bvals,
  mask = NULL,
  outprefix = NULL,
  opts = "",
  bet.opts = "",
  verbose = TRUE,
  sse = FALSE,
  save_tensor = FALSE,
  grad_image = NULL
)

Arguments

infile	Input filename
bvecs	b-vectors: matrix of 3 columns or filename of ASCII text file
bvals	b-values: vector of same length as number of rows of b-vectors or filename of ASCII text file
mask	Mask filename
outprefix	Output prefix
opts	Additional options for dtifit
bet.opts	Options for fslbet if mask is not supplied
verbose	print diagnostic messages
sse	Save sum of squared errors
save_tensor	Save tensor file out
grad_image	Gradient Nonlinearity Tensor file

Value

Vector of character filenames of output. See Note

Note

On successful completion of the command, the following files will be output, which are: mask - the mask used in the analysis outprefix_V1 - 1st eigenvector outprefix_V2 - 2nd eigenvector outprefix_V3 - 3rd eigenvector outprefix_L1 - 1st eigenvalue outprefix_L2 - 2nd eigenvalue outprefix_L3 - 3rd eigenvalue outprefix_MD - mean diffusivity outprefix_FA - fractional anisotropy outprefix_MO - mode of the anisotropy (oblate ~ -1; isotropic ~ 0; prolate ~ 1) outprefix_S0 - raw T2 signal with no diffusion weighting optional output If sse = TRUE, then the additional file will be present: outprefix_sse - Sum of squared error If save_tensor = TRUE, then the additional file will be present: outprefix_tensor - tensor as a 4D file in this order: Dxx,Dxy,Dxz,Dyy,Dyz,Dzz

neuroconductor-devel/fslr documentation built on May 6, 2021, 1:44 p.m.