There is active ongoing work to try to make this possible. If you have field maps, I believe the ciftify tool is already usable for this purpose:
https://github.com/edickie/ciftify A major issue with legacy data is that field maps are often not available and this will lead to inaccuracies in mapping the data to the surface. Efforts are on going to correct such distortion with nonlinear registration. See Figure 2 that compares various fMRI acquisition resolutions and interpolates curves between them. As for the resolution of structural MRI, this will matter most for segmentation of thin heavily myelinated cortical areas like visual or somatosensory areas. It’s not likely these areas are being well mapped with volume-based data either. Peace, Matt. From: <[email protected]<mailto:[email protected]>> on behalf of Joseph Orr <[email protected]<mailto:[email protected]>> Date: Friday, June 1, 2018 at 8:06 PM To: HCP Users <[email protected]<mailto:[email protected]>> Subject: Re: [HCP-Users] Conte69 164k and 32k mesh This is a great paper for encouraging the adoption of HCP-style acquisitions for future studies, but I'm curious about the benefit of applying the surface-based approach to existing, traditionally acquired datasets. In Figure 7 of your paper you simulate traditional acquisition resolutions which is very helpful. But these simulations are still assuming HCP-style sub-millimeter T1s and T2s for the surface registration. In a recent dataset I collected .8mm T1s but we didn't collect T2s (not my decision). What are your recommendations for more traditional study acquisitions like this? I think this question is what you're getting at in Figure 8, but I need to spend a little more time with the paper. Without a T2 is FreeSurfer my best bet? Thanks, Joe -- Joseph M. Orr, Ph.D. Assistant Professor Department of Psychological and Brain Sciences Texas A&M Institute for Neuroscience Texas A&M University College Station, TX On Fri, Jun 1, 2018 at 7:12 PM, Glasser, Matthew <[email protected]<mailto:[email protected]>> wrote: I would note that we don’t recommend mapping group average volume data to group average surfaces. It is a much better idea to map the data onto the individuals' surfaces and register it on the surface (and also avoid smoothing in the volume or even better avoid smoothing entirely): See this article currently in press at PNAS: https://www.biorxiv.org/content/early/2018/04/23/255620<https://urldefense.proofpoint.com/v2/url?u=https-3A__www.biorxiv.org_content_early_2018_04_23_255620&d=DwMF-g&c=ODFT-G5SujMiGrKuoJJjVg&r=ZKy1VO33u0kvO-PqY1gpb9Ld-AGhtT8c9PAcpsEyp70&m=NDSQ3kMMhk_BcjZ91RPExirFBMmqlMSPFqIRXr0e6Mk&s=Op6bJ6Q2t5EvGlDljAWbc9tKe1pHdybU1cXQUKBjEsA&e=> Peace, Matt. From: <[email protected]<mailto:[email protected]>> on behalf of Joseph Orr <[email protected]<mailto:[email protected]>> Date: Friday, June 1, 2018 at 6:37 PM To: Kristian M Eschenburg <[email protected]<mailto:[email protected]>> Cc: HCP Users <[email protected]<mailto:[email protected]>> Subject: Re: [HCP-Users] Conte69 164k and 32k mesh I'd recommend using the S900 group maps available at the BALSA site which is referred to on the caret page: https://balsa.wustl.edu/<https://urldefense.proofpoint.com/v2/url?u=https-3A__balsa.wustl.edu_&d=DwMF-g&c=ODFT-G5SujMiGrKuoJJjVg&r=ZKy1VO33u0kvO-PqY1gpb9Ld-AGhtT8c9PAcpsEyp70&m=NDSQ3kMMhk_BcjZ91RPExirFBMmqlMSPFqIRXr0e6Mk&s=nertDHfdcmNZRWyvrQ2xkwan957VrE9FyosIzhKP5Mw&e=> You can register volumetric data to the surfaces following the instructions in the Workbench tutorial or this blog post: http://mvpa.blogspot.com/2014/03/connectome-workbench-adding-volumes.html<https://urldefense.proofpoint.com/v2/url?u=http-3A__mvpa.blogspot.com_2014_03_connectome-2Dworkbench-2Dadding-2Dvolumes.html&d=DwMF-g&c=ODFT-G5SujMiGrKuoJJjVg&r=ZKy1VO33u0kvO-PqY1gpb9Ld-AGhtT8c9PAcpsEyp70&m=NDSQ3kMMhk_BcjZ91RPExirFBMmqlMSPFqIRXr0e6Mk&s=-3VEDq5QbXj8H94XYv4qckbANmT62lOByFhcIoukpWo&e=> I've found workbench to be more user friendly than caret, assuming that's what you were intending to use. Joe -- Joseph M. Orr, Ph.D. Assistant Professor Department of Psychological and Brain Sciences Texas A&M Institute for Neuroscience Texas A&M University College Station, TX On Fri, Jun 1, 2018 at 5:48 PM, Kristian M Eschenburg <[email protected]<mailto:[email protected]>> wrote: Hi HCP Admins Where can I download the 164k and 32k resolution Conte69 template meshes? I'm trying to register data I've acquired to the same MNI space-surfaces as the HCP data. I searched the SumsDB site (http://brainvis.wustl.edu/wiki/index.php//Caret:Atlases/Conte69_Atlas<https://urldefense.proofpoint.com/v2/url?u=http-3A__brainvis.wustl.edu_wiki_index.php__Caret-3AAtlases_Conte69-5FAtlas&d=DwMFaQ&c=ODFT-G5SujMiGrKuoJJjVg&r=ZKy1VO33u0kvO-PqY1gpb9Ld-AGhtT8c9PAcpsEyp70&m=VgTjzj6GtNY5OkkbA0JzFKw5Q0JILeOmYmRx6TQulFY&s=F3ndSFg5e0RefqpYKJ5c2JOgCVlaCJP6wVu0gQQHqXc&e=>) and it seems there was a "catastrophic failure" w.r.t to making this data freely available. Any information is appreciated. Kristian _______________________________________________ HCP-Users mailing list [email protected]<mailto:[email protected]> http://lists.humanconnectome.org/mailman/listinfo/hcp-users<https://urldefense.proofpoint.com/v2/url?u=http-3A__lists.humanconnectome.org_mailman_listinfo_hcp-2Dusers&d=DwMF-g&c=ODFT-G5SujMiGrKuoJJjVg&r=ZKy1VO33u0kvO-PqY1gpb9Ld-AGhtT8c9PAcpsEyp70&m=NDSQ3kMMhk_BcjZ91RPExirFBMmqlMSPFqIRXr0e6Mk&s=wCVk1igEI_a0pOwWL3FwdqRffyD5_iX1hkVHWMC_owE&e=> _______________________________________________ HCP-Users mailing list [email protected]<mailto:[email protected]> http://lists.humanconnectome.org/mailman/listinfo/hcp-users<https://urldefense.proofpoint.com/v2/url?u=http-3A__lists.humanconnectome.org_mailman_listinfo_hcp-2Dusers&d=DwMF-g&c=ODFT-G5SujMiGrKuoJJjVg&r=ZKy1VO33u0kvO-PqY1gpb9Ld-AGhtT8c9PAcpsEyp70&m=NDSQ3kMMhk_BcjZ91RPExirFBMmqlMSPFqIRXr0e6Mk&s=wCVk1igEI_a0pOwWL3FwdqRffyD5_iX1hkVHWMC_owE&e=> _______________________________________________ HCP-Users mailing list [email protected]<mailto:[email protected]> http://lists.humanconnectome.org/mailman/listinfo/hcp-users _______________________________________________ HCP-Users mailing list [email protected] http://lists.humanconnectome.org/mailman/listinfo/hcp-users
