fslr (version 1.3)

fnirt: Register using FNIRT

Description

This function calls fnirt to register infile to reffile and either saves the image or returns an object of class nifti

Usage

fnirt(infile, reffile, outfile = NULL, retimg = FALSE, reorient = FALSE,
  intern = TRUE, opts = "", verbose = TRUE, ...)

Arguments

infile

(character) input filename

reffile

(character) reference image to be registered to

outfile

(character) output filename

retimg

(logical) return image of class nifti

reorient

(logical) If retimg, should file be reoriented when read in? Passed to readNIfTI.

intern

(logical) pass to system

opts

(character) additional options to FLIRT

verbose

(logical) print out command before running

...

additional arguments passed to readNIfTI.

Value

• character or logical depending on intern