[Freesurfer] checking problems

Hi, I have some confusion. When I completely run the command, recon-all –s x249 –autorecon1, and I should stop to check for problems with intensity normalization, talairach transformation and skull stripping. How can I do to check these problems? And, which is I must do first? Thanks. _

[Freesurfer] mri_convert

Hi, I am very new to FMRI and would appreciate your help with my first attempt to use real data. I am trying to convert dicom images produced by a Siemens scanner to nii.gz format to be analysed by FSL FEAT. These BOLD images have 7 digit names without an extension and are in a folder on a CD

Re: [Freesurfer] How to generate inflated.H file?

from the subject/scripts dir: mris_curvature -thresh .999 -n -a 5 -w -distances 10 10 ../surf/$hemi.inflated should be done by default as part of the current recon-all I think. cheers, Bruce On Wed, 2 Jan 2008, Jiefeng Jiang wrote: Hi, Happy New Year everybody! I met a problem when I trie

[Freesurfer] How to generate inflated.H file?

Hi, Happy New Year everybody! I met a problem when I tried to make a template using "mris_make_template", it needs ?h.inflated.H file. However, I only have ?h.inflated file. Does anyone know how to generate ?h.inflated.H file? Thank you in advance! Jiefeng Jiang Medical image computing Nati

Re: [Freesurfer] Memory problems

Hi Juergen, can you send us the full command line and version info? thanks (and happy new year!) Bruce On Tue, 1 Jan 2008, Juergen Haenggi, Psychological Institute wrote: Dear FS experts I tried to average the brains of 92 subjects. We used a MacPro Quad with 5 GB RAM and about 10 GB vir

[Freesurfer] Memory problems

Dear FS experts I tried to average the brains of 92 subjects. We used a MacPro Quad with 5 GB RAM and about 10 GB virtual memory. When running make_average_subject the following error occurred: Checking 91 /Applications/freesurfer/subjects/average/tmp/make_average_vol-tmp/seg-SNPs_Vp92.mgh