dwi2fod: Estimate fibre orientation distributions from diffusion data...

In muschellij2/mrtrix: Port of MRTrix software

Description

Estimate fibre orientation distributions from diffusion data using spherical deconvolution

Usage

dwi2fod(infile, response, algorithm = c("csd", "msmt_csd"),
  bvals = NULL, bvecs = NULL, scheme = NULL, mask = NULL,
  lmax = NULL, shells = NULL, outfile = NULL, opts = "",
  verbose = TRUE, ...)

dwi2fod_with_response(infile, ...)

Arguments

infile	the input DWI image containing volumes that are both diffusion weighted and b=0
response	response file, usually generated by dwi2response
algorithm	the algorithm to use for fibre orientation distributions estimation
bvals	The file containing the b-values.
bvecs	The file containing the b-vectors.
scheme	The file containing a 4xT text file, instead of bvals/bvecs
mask	initial mask for response voxel selection
lmax	The maximum harmonic degree(s) of response function estimation (single value for single-shell response, comma-separated values for multi-shell response)
shells	The b-value shell(s) to use in response function estimation (single value for single-shell response, comma-separated values for multi-shell response)
outfile	Output response file
opts	Additional options to pass
verbose	Print diagnostic output
...	arguments to pass to std_opts

Value

Output filename

Examples

## Not run: 
infile = "~/Downloads/data.nii.gz"
bvals = "~/Downloads/bvals"
bvecs = "~/Downloads/bvecs"
response = dwi2response(infile, bvals = bvals, bvecs = bvecs)
fod = dwi2fod(infile, response = response,
bvals = bvals, bvecs = bvecs,
algorithm = "csd")
fod_make_resp = dwi2fod_with_response(infile = infile,
bvals = bvals, bvecs = bvecs)


## End(Not run)

muschellij2/mrtrix documentation built on July 9, 2019, 9:15 a.m.