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The appropriate GIFTI extension for that would be .func.gii. What fsaverage# space is that? Hopefully FreeSurfer provides a tool to convert that to GIFTI in full resolution fsaverage space and from there
we can help you get it to CIFTI in fs_LR.
Matt.
From: <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of "Katsumi, Yuta" <YKATSUMI@mgh.harvard.edu>
Reply-To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Date: Thursday, June 18, 2020 at 10:43 PM
To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] Visualization of FreeSurfer overlays in the HCP format
Hi Matt,
For instance, I have a statistical map (e.g., showing magnitude of functional connectivity at each vertex) that has been computed in 16k fsaverage space that I want to display on a fs_LR surface. I was wondering
if there’s a way to convert this file (which is in .mgh extension now) to .dscalar so it’d be CIFTI/wb compatible.
Thanks,
Yuta
From: <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of "Glasser, Matthew" <glasserm@wustl.edu>
Reply-To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Date: Thursday, June 18, 2020 at 10:37 PM
To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] Visualization of FreeSurfer overlays in the HCP format
External Email - Use Caution
What kind of data does one display in an “OVERLAY” file?
Matt.
From: <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of "Katsumi, Yuta" <YKATSUMI@mgh.harvard.edu>
Reply-To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Date: Thursday, June 18, 2020 at 5:43 PM
To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] Visualization of FreeSurfer overlays in the HCP format
Dear FreeSurfer community,
I would like to be able to display OVERLAY files generated in FreeSurfer on a surface in the HCP’s Workbench (e.g., on fs_LR surf.gii). The HCP team states in their documentation (https://wiki.humanconnectome.org/display/PublicData/HCP+Users+FAQ#HCPUsersFAQ-9.HowdoImapdatabetweenFreeSurferandHCP?)
that any surfaces to be converted to fs_LR need to be in .gii first, but I know mris_convert doesn’t take overlay files as input. It would be great if you could please let me know how I might be able to achieve this task.
Thanks,
Yuta
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