.surf.gii files only store geometry of cortex, they do not store activation data. We generally suggest .func.gii rather than .shape.gii, even though those two formats are the same, and with fMRI data, .func.gii is more appropriate.
To get data from the volume onto the surface, you need to have surface files already (from segmenting your subjects' anatomy), and then use wb_command -volume-to-surface-mapping. The HCP Pipelines can automate much of this process for you (including segmentation), as long as you have the required scan types. The issue that Matt is asking about is that the best way to get data onto the surface is to use each subjects' own anatomy with their own data, and to never do group averaging in the volume, or volume-based smoothing. This is important to avoid mixing signal between cortex and non-cortex, or across sulcal banks. Tim On Thu, Dec 14, 2017 at 4:23 PM, Glasser, Matthew <glass...@wustl.edu> wrote: > Is this from individuals or groups? Raw timeseries or stats? > > Peace, > > Matt. > > From: Sana Hussain <shuss...@ucr.edu> > Date: Thursday, December 14, 2017 at 3:45 PM > To: Matt Glasser <glass...@wustl.edu> > Subject: Re: [HCP-Users] Volumetric Data to Surface Data Question > > I have fMRI data in .nii format. I'm trying to convert it to .surf.gii or > .shape.gii. > > > On Thu, Dec 14, 2017 at 12:21 PM Glasser, Matthew <glass...@wustl.edu> > wrote: > >> What kind of data is this? >> >> Peace, >> >> Matt. >> >> From: <hcp-users-boun...@humanconnectome.org> on behalf of Sana Hussain < >> shuss...@ucr.edu> >> Date: Thursday, December 14, 2017 at 1:09 PM >> To: "hcp-users@humanconnectome.org" <hcp-users@humanconnectome.org> >> Subject: [HCP-Users] Volumetric Data to Surface Data Question >> >> Hello, >> >> I have a question about converting volumetric data to a surface file. I >> have images in .shape.gii format that was preprocessed using the HCP >> minimal preprocessing pipeline, but the data that I would like to overlay >> with it is in volumetric format. I cannot convert the .shape.gii files to >> nifti files, so how can I convert nifti files to .shape.gii or .surf.gii >> files? >> >> Sincerely, >> Anonymous >> >> _______________________________________________ >> HCP-Users mailing list >> HCP-Users@humanconnectome.org >> http://lists.humanconnectome.org/mailman/listinfo/hcp-users >> > _______________________________________________ > HCP-Users mailing list > HCP-Users@humanconnectome.org > http://lists.humanconnectome.org/mailman/listinfo/hcp-users > _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
