fsl_maths {fslr}

FSL Maths

Description

This function calls fslmaths

Usage

fsl_maths(..., outfile = tempfile(fileext = ".nii.gz"), retimg = FALSE)

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

Arguments

...

additional arguments passed to readnii.

outfile

(character) resultant image name (optional)

retimg

(logical) return image of class nifti

file

(character) image to be manipulated

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 fslmaths

verbose

(logical) print out command before running

Value

If retimg then object of class nifti. Otherwise, Result from system command, depends if intern is TRUE or FALSE.

Note

Functions with underscores have different defaults and will return an output filename, so to be used for piping