FSL Command Wrapper
This function calls fsl command passed to func
fslcmd(func, file, outfile = NULL, retimg = TRUE, reorient = FALSE, intern = FALSE, opts = "", verbose = TRUE, samefile = FALSE, opts_after_outfile = FALSE, frontopts = "", no.outfile = FALSE, trim_front = FALSE, run = TRUE, ...)
func |
(character) FSL function |
file |
(character) image to be manipulated |
outfile |
(character) resultant image name (optional) |
retimg |
(logical) return image of class nifti |
reorient |
(logical) If retimg, should file be reoriented when read in?
Passed to |
intern |
(logical) to be passed to |
opts |
(character) operations to be passed to |
verbose |
(logical) print out command before running |
samefile |
(logical) is the output the same file? |
opts_after_outfile |
(logical) should |
frontopts |
(character) options/character to put in before filename |
no.outfile |
(logical) is there an output file in the arguments of the FSL function? |
trim_front |
trim the whitespace from the front of the command. |
run |
(logical) Should the command just be printed (if |
... |
additional arguments passed to |
If retimg then object of class nifti. Otherwise,
Result from system command, depends if intern is TRUE or FALSE.
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