What I wound up doing is put the MNI152_T1_2mm and the FSL template in the same directory, and use a 6DOF FLIRT transformation to generate a transformation matrix from SPM--&gt;FSL.   The underlying brains/spaces are the same, but the padding on the images is different.... so you can just calculate the matrix automatically and then use the Apply_XFM program to convert whatever images you need from FSL--&gt;SPM (and vice versa if you invert the matrix).<br>
<br><br>dg<br><br><div class="gmail_quote">On Thu, Apr 30, 2009 at 8:08 PM, Emma Liang <span dir="ltr">&lt;<a href="mailto:[log in to unmask]"><a href="/cgi-bin/wa-jisc.exe?LOGON=A3%3Dind0905%26L%3DFSL%26E%3Dquoted-printable%26P%3D11108%26B%3D--0014853493402f03c20468cecf98%26T%3Dtext%252Fhtml%3B%2520charset%3DISO-8859-1%26pending%3D" target="_parent" >[log in to unmask]</a></a>&gt;</span> wrote:<br><blockquote class="gmail_quote" style="border-left: 1px solid rgb(204, 204, 204); margin: 0pt 0pt 0pt 0.8ex; padding-left: 1ex;">
Hi,<br><br>Could anyone tell me why and what coordinate difference between FSL and SPM on both using MNI standard as template. When I use GingerALE to transfer, there are different choices on them.<br><br>Best regards,<br>
<font color="#888888">
Emma<br>
</font></blockquote></div><br><br clear="all"><br>-- <br>David A Gutman, M.D. Ph.D.<br>Department of Psychiatry &amp; Behavioral Sciences<br>Emory University School of Medicine<br>