[Freesurfer] Virtualbox unzip password

External Email - Use Caution To whom it may concern >  Would you please send me the password for unzipping the virtual box file? Best Neda ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailma

[Freesurfer] mris_flatten .flat output in matlab

External Email - Use Caution Dear Experts, My aim is to get circular ROIs. At the moment i am trying it on the flatmap, and i am writing a matlab script to do the task. However, I am getting a problem to open the output file (.flat) of the mris_flatten function as surface in M

Re: [Freesurfer] Is it possible to edit this kind of error with cp?

External Email - Use Caution what is the error you are talking about? The area around the stroke? In theory, you could edit to WM where the WM is now gone, but you'd have to wait for the next version of FS, and even then I'm not sure it would work. Or are you talking about the pl

Re: [Freesurfer] apply an existing linear transform to a GRE phase map

External Email - Use Caution what do you mean that you won't want to do any resampling? How else would you apply a transform? Or do you mean that you want to use nearest neighbor resampling (so no interpolation)? If so, you can use mri_vol2vol with the --interp nearest option O

Re: [Freesurfer] mris_flatten .flat output in matlab

External Email - Use Caution If you download the dev version, you can run something like this: mri_binarize --dilate-vertex vtxno lh.white 10 lh.white.circle10.mgz where vtxno is the vertex no where you want the circle to be centered, 10 is the radius of the circle in mm It will n

Re: [Freesurfer] Why is this happening?

External Email - Use Caution can you be more specific? On 5/4/2023 1:34 PM, Rosalia Dacosta Aguayo wrote: External Email - Use Caution Dear Freesurfer's experts, Why is this happening? Kind regards, Rosie * * ___ Freesurf

Re: [Freesurfer] Why is this happening?

External Email - Use Caution Why is the brain white? I have been changing the thresholds and nothing seems to work... Kind regards, Rosie On Thu, May 4, 2023 at 7:53 PM Douglas N. Greve wrote: > External Email - Use Caution > > can you be more specific? > > On 5/4/2

Re: [Freesurfer] Why is this happening?

External Email - Use Caution I have solved the problem. I had trouble with skull stripping and the solutions given by FreeSurfer did not seem to work on my image, part of its skull was glue attached. Thus I used FSL to solve the problem and the values inside the mask are different