Hi Doug,
Thanks for the email. It is in 3mm space, so I guess I should reslice.
Can you please clarify the comment about fsaverage? Does the --mni152reg
flag not apply to that subject? I'm not sure what you mean about the
inclusion indicating ambiguity.
Thanks again,
Rita
On Tue, Apr 4, 2017 at 9:21 PM, Douglas Greve <gr...@nmr.mgh.harvard.edu>
wrote:
> The --mni152reg flag is only appropriate if the mov file is in the 2mm
> mni152 space. The inclusion of fsaverage as the source subject indicates
> some ambiguity about this
>
> On 4/3/17 1:56 PM, Rita Elena Loiotile wrote:
>
> Hi,
>
> I'm trying to compare analyses that I've done entirely on the surface to
> analyses I've done in the volume. I'm comparing the analyses by projecting
> the volume analyses to the surface (HCP's 32k_fs_LR).
>
> The commands I'm using are:
> mri_vol2surf --mov $niftiFile --mni152reg --hemi ${hemi} --projfrac-max 0
> 1 0.2 --o ${giftiFile}.$hemi.gii;
> mri_surf2surf --srcsubject fsaverage --srcsurfval ${giftiFile}.$hemi.gii
> --trgsubject 32k_fs_LR --trgsurfval ${giftiFile}.$hemi.gii --hemi ${hemi};
> It seems that the FSL volumes look identical to the surface analysis, when
> mapped. (Our surface analysis is mainly FSL-based, so this makes sense.)
> The SPM mapping, however, looks very odd. It isn't just that the intensity
> differs, but the localization of high intensity areas also varies. It seems
> that everything is shifted a bit superior and, possibly, posterior to the
> true location (as seen on the surface analysis).
> I'm wondering if I'm doing anything obviously wrong in my command usage.
> The brains were normalized to the MNI ICBM 152 template in SPM. I *think*
> it's suitable to use the -mni152reg flag in the command.
>
> I can attach pictures of the comparison if you'd like.
>
> Thanks in advance,
> Rita
>
>
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