[Freesurfer] mcprextreg file structure and X

as a nuisance regressor? I have also checked the fmcpr.mcdat but I also cannot find this in the X.dat data set ~Erik Jahner ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

Re: [Freesurfer] Average intensity from functional image within a label along the surface

For some participants I then get this error and it appears my label is not transforming into a volume appropriately when I examine the data. "ERROR: no voxels found in segmentation". Thanks again for all your assistance. ~Erik Jahner On 11 Jul 2021, at 7:52 AM, Douglas N. Greve

[Freesurfer] Average intensity from functional image within a label along the surface

created) at each frame along the surface to get a timcourse for a particular region? I see there is a way to do this with anatomical features such as thickness, but I do not see a way to do this with functional data across frames for signal intensity. Thanks ~Erik Jahner

[Freesurfer] ROI seed size

What is the appropriate size for a surface based seed? I am referencing a study with volumetric based seeds with spheres with a radius of 3mm (in fMRI data). I would like to do a similar study using surface based representations. In a volumetric based analysis folding may actually increase

[Freesurfer] Correcting for multiple comparisons using clustering and external data

Dear free surfer experts, I was wondering if someone could give me some general guidance on controlling for multiple comparisons using clustering and FDR. This the situation. I completed an analysis of functional data by first dividing the cortex into parcellations using the icosahedron 5 

[Freesurfer] Functional Connectivity Follow-up question

Dear Free Surfer Experts, I have a follow-up question to a previous message sent by Lingqiang which you responded to on Dec 21st 2011. (I have included a copy of this message below, but here is a link https://mail.nmr.mgh.harvard.edu/pipermail/freesurfer/2011-December/021728.html ). In a

[Freesurfer] Getting Waveform from Label - dim mismatch

data. See below for additional details of the parameters I entered. Thanks Erik Jahner > On Sep 9, 2016, at 8:20 AM, ERIK JAHNER <erik.jah...@icloud.com > <mailto:erik.jah...@icloud.com>> wrote: > > >> Dear Freesurfer experts, >> >> I am attempting to

[Freesurfer] Where are time series from adjusted (post selxavg3) ROIs

and css for each of the 210 timepoints). 3. Is this information in the X.mat file? If so, what is its location? Thanks Erik Jahner ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

[Freesurfer] ERROR: cannot find volume matching

Dear Free Surfer experts I am attempting to run a functional connectivity analysis on some resting state data. However, I keep getting stuck in this final step of the online Functional Connectivity Pathway. I have made a change based on discussion boards, but it do not help. CHANGE: in the

[Freesurfer] Surface segmentation for resting state

and not across sulci. Is there an automated way or easy way of building this ROI map. Erik Jahner ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail

[Freesurfer] Re: FSFAST error: ERROR: fast_selxavg3() failed\n matlab command not found

On Jul 09, 2016, at 09:00 AM, freesurfer-requ...@nmr.mgh.harvard.edu wrote: Send Freesurfer mailing list submissions to  freesurfer@nmr.mgh.harvard.edu To subscribe or unsubscribe via the World Wide Web, visit      https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer or, via email,

[Freesurfer] FSFAST error: ERROR: fast_selxavg3() failed\n

Hello FreeSurfer Developers, This is Erik Jahner, I’m attempting to complete the final step in the tutorial concerning FSFast Functional connectivity walkthrough (http://surfer.nmr.mgh.harvard.edu/fswiki/FsFastFunctionalConnectivityWalkthrough ), but for I get the following error when I run