Hi Doug I wanted to follow up this email and ask you a question. I see in the fspalm page, it says "You can use fspalm with both volume- and surface-based analyses; it will figure everything out". Considering your reply to the below email, I'm wondering if we can use fspalm for subcortical analysis or not?
I appreciate very much any comments on it. Thanks Mona ________________________________ From: freesurfer-boun...@nmr.mgh.harvard.edu <freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Greve, Douglas N.,Ph.D. <dgr...@mgh.harvard.edu> Sent: Monday, September 2, 2019 10:32 PM To: email@example.com <firstname.lastname@example.org> Subject: Re: [Freesurfer] PALM Analysis Sorry, fsplam is only for surfaces. On 9/2/2019 7:46 PM, Harikumar, Amritha wrote: > Hi there, > > I am trying to run a Permutation Analysis of Linear Models (PALM) for > analyzing subcortical areas in the nucleus accumbens, caudate, and putamen. > Upon trying to run the script after reading the Freesurfer wiki, I am not > sure what it is referring to regarding applying fsPalm in MATLAB. My > questions are - do we a.) copy paste the existing fspalm command in Matlab > and run it after setting the two Freesurfer paths listed in the wiki, or what > is the correct procedure to run it? I tried running it in terminal as well, > but didn’t have any luck. My existing Matlab script has set up the two > Freesurfer paths, and is trying to run the fsPalm command for each > subcortical area of the three ROIs mentioned above, but that isn’t working > either. Any help in running fsPalm would be greatly appreciated! > > Thanks, > Amritha > > Amritha Harikumar > Clinical Research Coordinator > Holt Emotion and Social Neuroscience Lab > Department of Psychiatric Neuroimaging > Martinos Center for Biomedical Imaging > Massachusetts General Hospital > ___________________________ > 149 13th Street, Rm 2620A > Charlestown, MA 02129 > Phone: 617-724-3283 > > > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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