Re: [HCP-Users] Fwd: Residual misalignment between diffusion and structural images

[Glasser, Matthew]

You are not going to be able to keep the data from the same cortical region if you do that.  Why do you need to get rid of them? Matt. From: Arash Nazeri <arashnaz...@gmail.com> Date: Wednesday, November 20, 2013 11:59 AM To: Matt Glasser <glass...@wusm.wustl.edu> Cc: "hcp-users@humanconnectome.org" <hcp-users@humanconnectome.org> Subject: Re: [HCP-Users] Fwd: Residual misalignment between diffusion and structural images Thanks Matt.  Is there a way a good way to get rid of these voxels and impute them based on the surrounding voxels? Cheer, Arash On Tue, Nov 19, 2013 at 12:34 AM, Glasser, Matthew <glass...@wusm.wustl.edu> wrote: There is some signal loss in the susceptibility regions in our diffusion data, but I looked in this subject and didn't see any evidence of misalignment with the T1w image immediately outside the regions of signal loss. Peace, Matt. From: Arash Nazeri <arashnaz...@gmail.com> Date: Monday, November 18, 2013 10:07 PM To: "hcp-users@humanconnectome.org" <hcp-users@humanconnectome.org> Subject: [HCP-Users] Fwd: Residual misalignment between diffusion and structural images Hi Matt, The subject ID is 100307.  I used the following code to generate the mid-cortical MD map. wb_command -volume-to-surface-mapping DTI_MD.nii.gz ../../../struct/T1w/Native/100307.L.midthickness.native.surf.gii L_MD_CUBIC.func.gii -cubic As can be seen there are some regions with clear white matter MD values in OFC and ventral temporal lobe. Bests, Arash On Mon, Nov 18, 2013 at 1:17 AM, Glasser, Matthew <glass...@wusm.wustl.edu> wrote: Hi Arash, Can you post some pictures and subject Ids where you see the issue? Thanks, Matt. From: Arash Nazeri <arashnaz...@gmail.com> Date: Saturday, November 16, 2013 10:50 AM To: "hcp-users@humanconnectome.org" <hcp-users@humanconnectome.org> Subject: [HCP-Users] Residual misalignment between diffusion and structural images Hi,  After mapping diffusion images to the midthickness surface of the cortex. There are some instances of misalignment in areas of heavy distortions (OFC, ventral temporal lobe). How could this be addressed? Would a nonlinear registration step between b0 and T2 images help? Cheers, Arash _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users   The materials in this message are private and may contain Protected Healthcare Information or other information of a sensitive nature. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this email in error, please immediately notify the sender via telephone or return mail. _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users   The materials in this message are private and may contain Protected Healthcare Information or other information of a sensitive nature. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this email in error, please immediately notify the sender via telephone or return mail.   The materials in this message are private and may contain Protected Healthcare Information or other information of a sensitive nature. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this email in error, please immediately notify the sender via telephone or return mail. _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users