mri_segment

This function calls <code>mri_segment</code> 
to segment tissues from an image

Wrapper functions that interface with 'Freesurfer'
<https://surfer.nmr.mgh.harvard.edu/>, a powerful and
commonly-used 'neuroimaging'
software, using system commands. The goal is to be able to interface with
'Freesurfer' completely in R, where you pass R objects of class 'nifti',
implemented by package 'oro.nifti', and the function executes an 'Freesurfer'
command and returns an R object of class 'nifti' or necessary output.

John Muschelli

freesurfer

Wrapper Functions for 'Freesurfer'

Athanasia Mo Mowinckel

mri_segment function

<dl><dt>file</dt>
<dd>(character) input filename</dd>
<dt>outfile</dt>
<dd>(character) output filename</dd>
<dt>retimg</dt>
<dd>(logical) return image of class nifti</dd>
<dt>opts</dt>
<dd>(character) additional options to <code>mri_segment</code></dd>
<dt>...</dt>
<dd>additional arguments passed to <code>fs_cmd</code>.</dd></dl>

Arguments

Use Freesurfers MRI Segmentation Algorithm — mri_segment

<dl>

<dt>file</dt>
<dd>(character) input filename</dd>


<dt>outfile</dt>
<dd>(character) output filename</dd>


<dt>retimg</dt>
<dd>(logical) return image of class nifti</dd>


<dt>opts</dt>
<dd>(character) additional options to <code>mri_segment</code></dd>


<dt>...</dt>
<dd>additional arguments passed to <code>fs_cmd</code>.</dd>

</dl>

mri_segment: Use Freesurfers MRI Segmentation Algorithm

Description

Usage

Value

Arguments