Re: [Freesurfer] voxel coordinates of corpus collosum

External Email - Use Caution Thanks for your reply. I want to get the voxel coordinates of CC and its subregions. I tried using the command mri_vol2label for cc subregions also. But still I am getting the error message: found no voxels matching id 251. What is the right command

[Freesurfer] Registration of image volumes

External Email - Use Caution Hi freesurfer, I want to do registration on two image volumes nifti file. What are the commands I have to use to do the registration? Shrabani Ghosh ___ Freesurfer mailing list

Re: [Freesurfer] Problem with installation test

External Email - Use Caution Thank You. It's working now. But I can see the execution time is really slow. Is it possible to make it faster using CUDA or any other way? On Thu, Jun 20, 2019 at 1:29 AM fsbuild wrote: > Hello Shrabani, > > It looks like you do not have tcsh

Re: [Freesurfer] Reposting a Question RE: Hippocampal/Amygdala subfield segmentation - Anterior Amygdala Area / Medial Nucleus Errors

Hi David what does the aseg look like in those cases? That is, is it the hippo/amygdala stuff failing or is the root cause further back in the stream (something that caused a bad aseg) cheers Bruce On Thu, 20 Jun 2019, David S Lee wrote: External Email - Use Caution

[Freesurfer] Reposting a Question RE: Hippocampal/Amygdala subfield segmentation - Anterior Amygdala Area / Medial Nucleus Errors

External Email - Use Caution Hello FreeSurfer Experts, I wanted to re-post this question (posted June 4th), yet did not receive your guidance: I have visually checked 116 subjects that have been processed using Freesurfer's latest hippocampal/amygdala subfield segmentation

Re: [Freesurfer] Labelling SurfStat p-value surface map

Hi Loïc the .mgz file should having dimensions nvertices x 1 x 1 for freeview to know it is a surface overlay I believe cheers Bruce On Thu, 20 Jun 2019, Loïc Daumail wrote: External Email - Use Caution Hi Bruce, I am reaching out to you, as I am trying to load the

Re: [Freesurfer] Labelling SurfStat p-value surface map

External Email - Use Caution Hi Bruce, I am reaching out to you, as I am trying to load the surface scalar values of diffusion embedding for overlay on a pial surface in Freeview. I used save_mgh to save a scalar matrix containing surface embedding values in an .mgz format.

[Freesurfer] neuroimaging pre-registration template

External Email - Use Caution Dear neuroimagers, We are organizing a hackathon to develop a tool to help researchers creating a pre-registration / registered-report for neuroimaging

[Freesurfer] Change colorbar font color in Freeview

External Email - Use Caution Hi all, I changed the background color in Freeview to white and now want to change the font color of the colorbar to black for better visibility. Any ideas on how to do this? Many thanks in advance, Saskia

Re: [Freesurfer] voxel coordinates of corpus collosum

Hi Sadia we subdivide the cc into multiple components: 251 CC_Posterior0 0 64 0 252 CC_Mid_Posterior0 0 112 0 253 CC_Central 0 0 160 0 254 CC_Mid_Anterior 0 0 208 0 255

Re: [Freesurfer] problem with reconstruction

Yes that would be awesome. I am using the Martinos file drop, hope it is ok. Thank you, Vale From: freesurfer-boun...@nmr.mgh.harvard.edu on behalf of Bruce Fischl Sent: Wednesday, June 19, 2019 4:55:53 PM To: Freesurfer support list Subject: Re:

[Freesurfer] voxel coordinates of corpus collosum

External Email - Use Caution Dear Freesurfer experts How can I get the voxel coordinates of the segmented corpus callosum? I tried using the command mri_vol2label and id of the corpus callosum as 192 as given in Freesurfer LUT, but it gives an error: found no voxels matching id