Yes, run isxconcat-sess for the pre and the post separately. You will get two different stacks. Then run fscalc pre.nii.gz sub post.nii.gz -o pre-post.nii.gz Then use pre-post.nii.gz as input to mri_glmfit You can compute percent change instead as
fscalc pre.nii.gz pctdiff0 post.nii.gz -o pre-post.percent.nii.gz
On 11/6/19 8:37 AM, Barbour, Tracy,M.D. wrote:
Thanks Doug,
Is there a way to do a pairwise t-test of whole brain resting state connectivity? I have pre-intervention scans and post-intervention scans and want to compare pre vs post.
Best,
Tracy
*From:* freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Greve, Douglas N.,Ph.D. DGREVE@mgh.harvard.edu *Sent:* Tuesday, November 5, 2019 3:22 PM *To:* freesurfer@nmr.mgh.harvard.edu freesurfer@nmr.mgh.harvard.edu *Subject:* Re: [Freesurfer] Longitudinal Analysis for functional connectivity data? You can use the longitudinal anatomical analysis to inform the functional analysis across time, but there is not a longitudinal functional analysis per se.
On 11/5/2019 2:15 PM, Barbour, Tracy,M.D. wrote:
Hello Freesurfer experts!
I see that there is a longitudinal processing pipeline for volume/cortical thickness. I was wondering if the same pipleline could be used for resting state functional connectivity based analysis?
Best,
Tracy
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