mcflirt: FSL Motion Correction

In muschellij2/fslr: Wrapper Functions for 'FSL' ('FMRIB' Software Library) from Functional MRI of the Brain ('FMRIB')

FSL Motion Correction

Description

This function calls mcflirt

Usage

mcflirt(
  file,
  outfile = NULL,
  retimg = TRUE,
  reorient = FALSE,
  intern = FALSE,
  opts = "",
  verbose = TRUE,
  ...
)

Arguments

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 readnii.
intern	(logical) to be passed to system
opts	(character) operations to be passed to mcflirt. Cannot use -o or -verbose, as output file should be specified in outfile.
verbose	(logical) print out command before running
...	additional arguments passed to readnii.

Value

If retimg then object of class nifti. Otherwise, it will have additional attributes in the additional_files field.

muschellij2/fslr documentation built on May 10, 2024, 2:12 a.m.