This function calls eddy
from FSL for
DTI Processing
eddy(
infile,
mask,
acq_file,
index_file,
bvecs,
bvals,
topup = NULL,
outfile = NULL,
retimg = TRUE,
opts = "",
verbose = TRUE,
eddy_cmd = c("eddy", "eddy_openmp", "eddy_cuda"),
...
)
Result from system command currently
input filename of 4D image.
Mask filename (or class nifti)
A text-file describing the acquisition parameters for the
different images in infile
The format of this file is identical
to that used by topup (though the parameter is called --datain
there).
A text-file that determines the relationship between
on the one hand the images in infile
and on the other hand the
acquisition parameters in acq_file
.
A text file with normalised vectors describing the direction of the diffusion weighting.
A text file with b-values describing the "amount of" diffusion weighting
This should only be specified if you have previously run `topup` on your data and should be the same name that you gave as an argument to the --out parameter when you ran topup, aka the base name for output files from topup.
Output file basename
(logical) return image of class nifti
Additional options to pass to arguments
passed to eddy
print diagnostic messages
The version of eddy
to run.
Not currently used