Re: [Freesurfer] mapping the reliability of separating GM/WM

External Email - Use Caution Hi Bruce, Thanks for the info. Can the tool display the vertexes with low G/W contrast? I would like to use those vertexes as a guide for visual evaluation. Cheers, Yawu Bruce Fischl 于 2019年12月19日周四 16:52写道： > Hi Yawu > > we have tools for mapping G/

Re: [Freesurfer] Thickness problem

External Email - Use CautionHi Dr. Greve, Thank you for your comment.I compared cortical thickness bewteen two groups. I have a question. What does the values mean in the "sig.table.dat" file (ex. 0.571)? Good luck,   -

Re: [Freesurfer] Conversion fMRI volumes to surface

Please send the command line and full terminal output. Also, please include the previous emails doug On 12/19/2019 4:28 AM, Marina Fernández wrote: External Email - Use Caution Thanks Doug. I created the surface with the command line that I sent you (mri_vol2surf ...) and then, I run

Re: [Freesurfer] Manual segmentation to volume

External Email - Use Caution Many thanks for your quick reply! I tried your suggestion. I got the error fstal unknown. So I tried talres 1 instead of fstal 1: mri_vol2vol --talres 1 --interp nearest --mov example.mgz --s 001.mgz --regheader --o example.mni305.mgz but got the err

Re: [Freesurfer] mapping the reliability of separating GM/WM

Hi Yawu we have tools for mapping G/W contrast and CNR, but of course that presupposes that our surfaces are in the correct location (more or less). You can for example use vol2surf to sample at negative and positive proj_dist and compute this kind of thing, or I believe Doug has some binarie

Re: [Freesurfer] Creating a label from overlapping cluster results

Hi Cody not sure we have a binary for this, but it would be about 5 lines of matlab code cheers Bruce On Thu, 19 Dec 2019, cody samth wrote: External Email - Use Caution Hi, I was wondering if there is any automated command/method to create a new label that consists of the

Re: [Freesurfer] Pial surface does not follow the gray/csf boundary

External Email - Use Caution Thanks for pointing out the -r option, I hadn't seen that one before in the documentation. It indeed pushed the pial surface to the correct place in some parts of the brain (unfortunately not everywhere). Running mris_make_surfaces with the -noaseg f

[Freesurfer] mapping the reliability of separating GM/WM

External Email - Use Caution Hi Freesurfers, The contrast between GM/WM may vary regions by regions. Some regions have high contrast, some regions have low contrast, is there a method can map the reliability of separating gray and subcortical white matter? Thanks in advance, Yawu

Re: [Freesurfer] Conversion fMRI volumes to surface

External Email - Use Caution Thanks Doug. I created the surface with the command line that I sent you (mri_vol2surf ...) and then, I run that command that you sent me (tkregisterfv...) but I have the following error when freeview is trying to load the file: 'Failed to load MRI /