<div dir="ltr">Hi,<div><br></div><div>Thanks for your answer!</div><div><br></div><div><span style="color:rgb(0,0,0);font-family:Arial,sans-serif;line-height:20.8px;text-align:justify">I would like to try surface searchlight, and for that I need to resample the surfaces to standard topologies (with different resolutions) using MapIcosehedron, align surfaces to a reference functional volume, and merge left and right hemispheres into single surface files.</span><br></div><div>However, for me it is unclear what file should I use as a reference functional volume.</div><div><br></div><div>-Maria</div></div><div class="gmail_extra"><br><div class="gmail_quote">2016-02-12 14:50 GMT+02:00 Nick Oosterhof <span dir="ltr"><<a href="mailto:n.n.oosterhof@googlemail.com" target="_blank">n.n.oosterhof@googlemail.com</a>></span>:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><span class=""><br>
> On 12 Feb 2016, at 12:50, Maria Hakonen <<a href="mailto:maria.hakonen@gmail.com">maria.hakonen@gmail.com</a>> wrote:<br>
><br>
> I have reconstructed pial and white surfaces using FreeSurfer, and now I would need to preprocess them with AFNI and SUMA using the pymvpa2-prep-afni-surf wrapper script. I wonder if you have any example for this?<br>
<br>
</span>Running<br>
<br>
pymvpa2-prep-afni-surf -h<br>
<br>
gives (with other output not shown here):<br>
<br>
For typical usage it requires three arguments:<br>
(1) "-e epi_filename" or "-a anat_filename"<br>
(2) "-d freesurfer/directory/surf"<br>
(3) "-r outputdir"'<br>
<br>
Does that answer your question?<br>
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</blockquote></div><br></div>