Hi, John:<br><br>Thanks for your help. I will ask senior students if they are able to write NIFTI Volumes (.nii).<br><br>For .hdr files, I have followed your instructions.<br>After mapping .hdr to Surface, It looks better than before (<a href="http://midodo.net/neuro/caret2/capture.tiff">http://midodo.net/neuro/caret2/capture.tiff</a>) but it doesn't look as perfect as what you did yesterday (the attached file: pastedGraphic.tiff).<br>
The right spotlight (22, 54, 4) seems to be not as bright as "pastedGraphic.tiff" does. <br><br>I took the screenshots step-by-step:<br><a href="http://midodo.net/neuro/caret2/">http://midodo.net/neuro/caret2/</a><br>
<br>Did I do something wrong or set improper parameters?<br><br>Thank you very much.<br><br>.Midoli<br><br><br><div class="gmail_quote">On Wed, Jul 8, 2009 at 12:56 AM, John Harwell <span dir="ltr"><<a href="mailto:john@brainvis.wustl.edu">john@brainvis.wustl.edu</a>></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;">Midoli,<br>
<br>
It appears that your volume is in radiological orientation (it has the left on the right). Unfortunately, there is nothing in the Analyze file format that provides orientation information and the Map Volume to Surface assumes the left is on the left.<br>
<br>
What you can do is use File Menu->Open Data File to read your volume file and you will be asked if the volume is in radiological orientation so answer yes. Next, use Map Volume to Surface and when selecting your volume, press the Add Loaded Volumes button and select the volume you loaded using Open Data File. Continue the process as you have previously and your data should be mapped correctly.<br>
<br>
It appears that the volume was written by SPM. If your version of SPM is able to write NIFTI Volumes (.nii) instead of Analyze Volume (.hdr) use NIFTI. The NIFTI format contains all of the needed orientation information.<br>
<br>
<br><br>
<br>
<br>
-----------------------------------<br>
John Harwell<br>
<a href="mailto:john@brainvis.wustl.edu" target="_blank">john@brainvis.wustl.edu</a><br>
<br>
Department of Anatomy and Neurobiology<br>
Washington University School of Medicine<br>
660 S. Euclid Ave Box 8108<br>
Saint Louis, MO 63110<br>
<br>
<br>
<br>
<br>
On Jul 7, 2009, at 10:03 AM, midoli wrote:<br>
<br>
<blockquote class="gmail_quote" style="border-left: 1px solid rgb(204, 204, 204); margin: 0pt 0pt 0pt 0.8ex; padding-left: 1ex;">
Hi CARET experts,<br>
<br>
I used CARET (v5.6.1) to map a functional volume (SPM2 results) to PALS_B12.RIGHT.STANDARD-SCENES.73730.spec.<br>
We expected there will be three spotlights.<br>
-- 1.(42, -60, 34), 2.(26, 26, 62), 3.(22, 54, 4)<br>
-- P< 0.01, k >10<br>
However, we found that the displayed results differed from what we expected.<br>
<br>
I took the screenshots step-by-step and upload the .hdr and .img files to this directory:<br>
<a href="http://midodo.net/neuro/caret/" target="_blank">http://midodo.net/neuro/caret/</a><br>
<br>
Any help is much appreciated.<br>
Thanks,<br>
<br>
Midoli<br>
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