Re: [Freesurfer] How to overlay FSL GFEAT statistical maps onto a fsaverage surface

Hi Doug,

Awesome! Thanks a lot. This works out nicely. I think for some reasons, reg-feat2anat doesn't generate a good anat2std.register.dat for my subject. But using mni152.register.dat allows me still able to visualize the functional maps in MNI152 standard space.

Best, Daniel

________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu [freesurfer-bounces@nmr.mgh.harvard.edu] on behalf of Douglas Greve [greve@nmr.mgh.harvard.edu] Sent: Thursday, August 01, 2013 7:32 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] How to overlay FSL GFEAT statistical maps onto a fsaverage surface

That won't work. If you are going to use anat2std.register.dat, then you will need to specify the individual subject instead of fsaverage. For fsaverage, use $FREESURFER_HOME/average/mni152.register.dat

doug

On 8/1/13 7:11 PM, Yang, Daniel wrote: Hi FreeSurfer Expert,

So GFEAT results are in MNI152 standard space. Is there a way I can visualize the GFEAT results on a fsaverage surface?

For example, if I do the following, would that be okay?

tksurfer fsaverage lh inflated -annot aparc.annot \ -ov fbert.gfeat/cope1.feat/stats/zstat1.nii.gz \ -ovreg fbert1.feat/reg/freesurfer/anat2std.register.dat \ -fthresh 2.3 -fmid 3.3 -fslope 1

Thanks! Daniel

-- Yung-Jui "Daniel" Yang, PhD Postdoctoral Researcher Yale Child Study Center New Haven, CT (203) 737-5454

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