[caret-users] map a functional volume (SPM2 results) to PALS_B12.RIGHT.STANDARD-SCENES.73730.spec

[John Harwell]

Midoli,

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.

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.

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.

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-----------------------------------
John Harwell
john at brainvis.wustl.edu

Department of Anatomy and Neurobiology
Washington University School of Medicine
660 S. Euclid Ave   Box 8108
Saint Louis, MO 63110




On Jul 7, 2009, at 10:03 AM, midoli wrote:

> Hi CARET experts,
>
> I used CARET (v5.6.1) to map a functional volume (SPM2 results) to  
> PALS_B12.RIGHT.STANDARD-SCENES.73730.spec.
> We expected there will be three spotlights.
> -- 1.(42, -60, 34), 2.(26, 26, 62), 3.(22, 54, 4)
> -- P< 0.01, k >10
> However, we found that the displayed results differed from what we  
> expected.
>
> I took the screenshots step-by-step and upload the .hdr and .img  
> files to this directory:
> http://midodo.net/neuro/caret/
>
> Any help is much appreciated.
> Thanks,
>
> Midoli
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