Re: [Freesurfer] group pcc maps for functional connectivity

Use ppc.nii as input to mri_glmfit and proceed as usual with the group analysis. doug

On 09/23/2013 12:31 PM, Caspar M. Schwiedrzik wrote:

Hi Doug, thanks for the info. If I run isxconcat-sess with -m pcc, I get only a pcc file as output. Should I put this into mri_glmfit as --y pcc.nii, or should I re-run isxconcat-sess without -m pcc? Thanks again, Caspar

2013/9/23 Douglas N Greve <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu>

Hi Caspar, just use -m pcc in isxconcat-sess and continue as
normal with
the group analysis
doug

On 09/23/2013 09:50 AM, Caspar M. Schwiedrzik wrote:
> Hi Freesurfer Experts,
> I am trying to calculate group pcc maps for resting state functional
> connectivity analyses. Unfortunately, the walkthrough does not cover
> this.
>
> I found several posts regarding this on the mailing list, but I
am not
> sure which one is the right way to go:
>
> There is -m pcc in isxconcat-sess
>
(http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg30456.html)
> and there is also fast_glm_pcc (e.g.,
>
http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg22648.html),
> however, the various posts on the later functional all seem to
differ
> in how to properly use it.
>
> This is in version 5.1.
> Please advise.
> Thanks, Caspar
>
>
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