Like I said, I don’t think you could do this with surface registration because you cannot easily inflate a combined surface to a sphere. You would need to project to the volume and then back to the surface. I don’t know that it really matters what volume you use.
Peace, Matt. From: Thomas DeRamus <tpdera...@gmail.com<mailto:tpdera...@gmail.com>> Date: Friday, August 25, 2017 at 10:28 AM To: Matt Glasser <glass...@wustl.edu<mailto:glass...@wustl.edu>> Subject: Re: [HCP-Users] Merging Annotation Files into Gifti Image Its for visualization to be honest. I'm doing an analysis with FC and Diffusion tractography using subregions of Thomas Yeo's 2011 cortical atlas and Choi's 2012 striatum atlas and I'm looking at ipsilateral and contralateral connections. I can load the trk.gz and Brainnetviewer connectivity data pretty easily in something like SurfIce but I'd like to display the Yeo's atlas in its original form for the figure. As far as that registration goes, how would I go about doing so? On Fri, Aug 25, 2017 at 10:17 AM, Glasser, Matthew <glass...@wustl.edu<mailto:glass...@wustl.edu>> wrote: You might actually have to remap that to the subject’s volume using the individual surfaces and then back to the merged surface. The reason is that by merging the surfaces you change the topology, and in such a way that we cannot use surface registration to handle things. Tim may have additional ideas… Why do you need to combine the surfaces in this way? Peace, Matt. From: <hcp-users-boun...@humanconnectome.org<mailto:hcp-users-boun...@humanconnectome.org>> on behalf of Thomas DeRamus <tpdera...@gmail.com<mailto:tpdera...@gmail.com>> Date: Friday, August 25, 2017 at 10:05 AM To: "hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>" <hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>> Subject: [HCP-Users] Merging Annotation Files into Gifti Image Hello HCP Users, New to the HCP Workbench so I apologize if this is a newbie issue but I haven't found anything in the listserv describing it. I'm tying to merge a smaller version of the Yeo2011 atlas annotation file from Freesurfer into a single gifti that I can overlay onto a gifti image with both Freesurfer hemispheres. I can merge the two hemispheres pretty easily with: mris_convert --combinesurfs lh.pial rh.pial Bothhemi.gii And I can convert the annotation files to giis pretty easily with: mris_convert --annot lh.ReducedYeo2011.annot lh.pial lh.ReducedYeo2011.gii But I can't then merge the separate annot files and project it onto the merged surface gifti. Either because it can't read the annot.gii or when it does it just projects it onto one hemisphere as a single value. Would anyone know how to do this conversion? Or alternatively, would it be easier to project a nii with the ROIs I'm interested in onto a surface with both hemispheres and then adjust accordingly? If so, how would I go about that? Annots attached. -- Thomas DeRamus UAB Department of Psychology, Behavioral Neuroscience Graduate Research Trainee Civitan International Research Center 1719 6th Ave S, Suite 235J, Birmingham, AL 35233 Phone: 205-934-0971<tel:(205)%20934-0971> Email: tpdera...@gmail.com<mailto:tpdera...@gmail.com>, faus...@uab.edu<mailto:faus...@uab.edu> “If knowledge can create problems, it is not through ignorance that we can solve them.” —Issac Asimov _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org<mailto:HCP-Users@humanconnectome.org> http://lists.humanconnectome.org/mailman/listinfo/hcp-users -- Thomas DeRamus UAB Department of Psychology, Behavioral Neuroscience Graduate Research Trainee Civitan International Research Center 1719 6th Ave S, Suite 235J, Birmingham, AL 35233 Phone: 205-934-0971 Email: tpdera...@gmail.com<mailto:tpdera...@gmail.com>, faus...@uab.edu<mailto:faus...@uab.edu> “If knowledge can create problems, it is not through ignorance that we can solve them.” —Issac Asimov _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
