Hi Freesurfers,<div><br></div><div>I am using preproc-sess in Freesurfer/Fsfast 5 with per-run motion correction (these subjects have a lot of between-run motion), and I want to analyze the volumes in each subject&#39;s individual space (I&#39;d prefer native functional space, but I am happy to do it in each subject&#39;s anatomical space).  Do preproc-sess, mkanalysis-sess, or selxavg3-sess have any built-in flags that would automatically align the functional volumes using the 6 rigid parameters generated from bbregister?  Or do they have a built-in way to align and to upsample the functional volumes to the subject&#39;s anatomical space (not the surface)?  I am happy to upsample each run&#39;s functional volume to anatomical space with an mri_vol2vol call, and then to estimate my glm with selxavg3-sess on these volumes.  But I figure there may be some flags that do this automatically.  I&#39;ve looked through the documentation and I haven&#39;t found these flags.  Is this possible to do automatically?</div>
<div><br></div><div>Thanks, guys!</div><div><br></div><div><br></div><div>Alex</div><div><br></div><div>Kanwisher Lab Manager</div><div>McGovern Institute for Brain Research</div><div>MIT</div>