Since tractography is done on individual subject data, you don't want a version of the parcellation that was mapped to the volume with the group average surfaces (like the one you linked to). You can do per-subject mapping yourself with wb_command -label-to-volume-mapping, using either the group MMP, or the individual parcellations (when available).
However, the tractography tools we are more comfortable with (FLS probtrackx) allow direct tracking to/from surfaces, avoiding the need to map anything back to volume. Of course, we don't know of anyone who has solved the tractography gyral bias issue yet... Tim On Mon, Dec 11, 2017 at 1:29 PM, Nicola Toschi <[email protected]> wrote: > Hello List and Lello Matthew, > > I found a few versions of your new atlas in volumetric space. > > (e.g. > <https://figshare.com/articles/HCP-MMP1_0_projected_on_MNI2009a_GM_volumetric_in_NIfTI_format/3501911> > https://figshare.com/articles/HCP-MMP1_0_projected_on_ > MNI2009a_GM_volumetric_in_NIfTI_format/3501911) > > I know it has alignment problems in volumetric space, so I would like your > opinion on the following: do you feel it is still "good enough" (in > volumetric space) to generate whole-brain connectomes with MRtrix (multi > tissue CSD+SIFT) using the parcels as seeds? Or would you advise even > against doing that? > > Thanks a lot! > > Nicola > > On 11/02/2017 02:21 AM, Glasser, Matthew wrote: > > No they didn’t get saved out. > > Matt. > > From: Amanda Mejia < <[email protected]>[email protected]> > Date: Wednesday, November 1, 2017 at 5:30 PM > To: Matt Glasser < <[email protected]>[email protected]> > Cc: " <[email protected]>[email protected]" < > [email protected]> > Subject: Re: [HCP-Users] Glasser atlas network labels > > Gotcha. Are the regression coefficients representing that association > available anywhere? > > On Wed, Nov 1, 2017 at 6:25 PM, Glasser, Matthew <[email protected]> > wrote: > >> Hi Amanda, >> >> They aren’t really network labels, but rather there are some groups of >> areas whose mean time courses are regressed into all of the areas to see >> the extent to which each area is associated with each group. >> >> Matt. >> >> From: <[email protected]> on behalf of Amanda Mejia < >> <[email protected]>[email protected]> >> Date: Wednesday, November 1, 2017 at 2:35 PM >> To: " <[email protected]>[email protected]" < >> [email protected]> >> Subject: [HCP-Users] Glasser atlas network labels >> >> Hi, >> >> I am using the Glasser parcellation (from Glasser, et al. “A Multi-Modal >> Parcellation of Human Cerebral Cortex.” Nature (2016): 171–178.) and would >> like to group the parcels into networks. In Figure 3 of the paper, the >> parcels are grouped into five networks (sensory/motor, auditory, visual, >> task positive and task negative). Is it possible to obtain these network >> labels? >> >> Amanda >> >> -- >> AMANDA F MEJIA, PhD >> Assistant Professor >> Department of Statistics >> Indiana University Bloomington >> <https://mandymejia.wordpress.com/>https://mandymejia.wordpress.com/ >> >> _______________________________________________ >> HCP-Users mailing list >> [email protected] >> http://lists.humanconnectome.org/mailman/listinfo/hcp-users >> > > > > -- > AMANDA F MEJIA, PhD > Assistant Professor > Department of Statistics > Indiana University Bloomington > https://mandymejia.wordpress.com/ > > _______________________________________________ > HCP-Users mailing list > [email protected] > http://lists.humanconnectome.org/mailman/listinfo/hcp-users > > > _______________________________________________ > HCP-Users mailing list > [email protected] > http://lists.humanconnectome.org/mailman/listinfo/hcp-users > _______________________________________________ HCP-Users mailing list [email protected] http://lists.humanconnectome.org/mailman/listinfo/hcp-users
