fslr (version 2.25.3)

fsl_bin: Binarize Image using FSL

Description

This function calls fslmaths -bin. The R functions wraps fslmaths

Usage

fsl_bin(..., outfile = tempfile(fileext = ".nii.gz"), retimg = FALSE)
fslbin(
  file,
  outfile = NULL,
  retimg = TRUE,
  reorient = FALSE,
  intern = FALSE,
  opts = "",
  ...
)

Value

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

Arguments

...

additional arguments passed to readnii.

outfile

(character) resultant image name (optional)

retimg

(logical) return image of class nifti

file

(character) image to be binarized

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

Examples

  set.seed(5)
dims = rep(10, 3)
arr = array(rnorm(prod(dims)), dim = dims)
nim = oro.nifti::nifti(arr)
if (have.fsl()){
 fslbin(nim)
 fsl_bin(nim)
 }