recon_con1

recon_con1,recon_con2,recon_con3

autorecon1

recon_con2

autorecon2

recon_con3

autorecon3

Reconstruction from Freesurfer for Step 1-5 
(Motion Correction to Skull Strip), which calls <code>-autorecon1</code>
in <code>recon-all</code>

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

recon_con1 function

<dl><dt>infile</dt>
<dd>Input filename (dcm or nii)</dd>
<dt>outdir</dt>
<dd>Output directory</dd>
<dt>subjid</dt>
<dd>subject id</dd>
<dt>verbose</dt>
<dd>print diagnostic messages</dd></dl>

Arguments

Reconstruction from Motion Correction to Skull Strip — recon_con1

<dl>

<dt>infile</dt>
<dd>Input filename (dcm or nii)</dd>


<dt>outdir</dt>
<dd>Output directory</dd>


<dt>subjid</dt>
<dd>subject id</dd>


<dt>verbose</dt>
<dd>print diagnostic messages</dd>

</dl>

recon_con1: Reconstruction from Motion Correction to Skull Strip

Description

Usage

Value

Arguments