mri_watershed: Use Freesurfers MRI Watershed Algorithm

In freesurfer: Wrapper Functions for 'Freesurfer'

Description

This function calls mri_watershed to extract a brain from an image, usually for skull stripping.

Usage

mri_watershed(file, outfile = NULL, retimg = TRUE, opts = "", ...)

Arguments

file	(character) input filename
outfile	(character) output filename
retimg	(logical) return image of class nifti
opts	(character) additional options to mri_watershed
...	additional arguments passed to fs_cmd.

Value

Character or nifti depending on retimg

Examples

## Not run: 
if (have_fs()){
    mri_watershed("/path/to/T1.nii.gz")
} 

## End(Not run)  

Example output

freesurfer documentation built on Dec. 9, 2020, 1:07 a.m.