[Freesurfer] R: R: How means all the output file from a segmentation?

o use mri_vol2surf but I obtain a surface with 0 vertices. Can you help me?? Cheers Leonardo -Messaggio originale- Da: Bruce Fischl [mailto:fis...@nmr.mgh.harvard.edu] Inviato: domenica 13 giugno 2010 14.29 A: Leonardo Chesi Cc: freesurfer@nmr.mgh.harvard.edu; Ruopeng Wang Oggetto: Re: R: [Frees

[Freesurfer] R: How means all the output file from a segmentation?

20.22 A: Leonardo Chesi Cc: freesurfer@nmr.mgh.harvard.edu Oggetto: Re: [Freesurfer] How means all the output file from a segmentation? Hi Leonardo, the outputs are listed on our wiki. If you want to extract a single structure you can use mri_binarize using the indices in the $FREESURFER_HOME

[Freesurfer] How means all the output file from a segmentation?

Hi, after the segmentation process, we obtain a lots of file that I can't understand what they represent. Infact I know the mean of the file aseg.mgz (that is a mask of the segmentation) and norm.mgz but for example I can't understand the difference between brainmask.mgz and brainmask_auto.mgz. Can

[Freesurfer] How to measure hippocampal volume

Hi, after your help, now I can segment my MRI images fine with the nu_correct command. Now I'd like another little help from you. I study AD's patients and I need to extract the hippocampal, the amygdala and another few volumes from the segmented images. Can you help me? What kind of command I can

Re: [Freesurfer] nu-correct parameters

Hi Nick, tank a lot for your help. I've tried to launch the segmentation as you had write me but I received back some errors. So I have try to add to the command line the -autorecon-all parameters because it try to find some volumes that there wasn't in that folder. With the -autorecon-all parame

[Freesurfer] nu-correct parameters

Dear all, I'm Leonardo, a student of the University of Pisa. We study AD's patients by MRI. In the last days I had have many problems with the segmentation because of the B0 inhomogeneity with a 8 channel phased array coil on a 3.0 T General Electric machine. In some articles I have found the nu_c

Re: [Freesurfer] PROBLEMS WITH SEGMENTATION

Hi Bruce, thank a lot for your attention. I'll post to you the DICOM header so you will found all the information. We have a GE, Signa 3.0 T with a phased array coil at 8 channel and I haven't any access to other coil. Follow the DICOM header Format: 'DICOM'