Dear Freesurfer experts,
I am currently trying to segment a 7T image at 0.8 isotropic resolution. I have an MPRAGE scan and a Gradient echo, and want to coregister the data before processing to correct for inhomogenities, but unsure whether I can use FSL instead of SPM. I am following these instructions: https://surfer.nmr.mgh.harvard.edu/fswiki/HiResRecon
I am new to SP8 and not sure what I would have to do with this information specifically: (i1./i2 .* (i2>20)) .* 100.
Also, is it possible to just use the recon-all process or would you recommend going through each step individually outlined above? Is the second option the option for keeping the voxels at 0.8? Furthermore, I read somewhere that you have to use the -cm -aseg command to keep the voxels the same. is this true?
Best wishes and many thanks, Lucy
Hi Lucy
Jon Polimeni (ccd) probably has the most experience processing 7T data. Jon: can you comment?
thanks Bruce
On Sun, 7 Sep 2014, Lucy Hiscox wrote:
Dear Freesurfer experts,
I am currently trying to segment a 7T image at 0.8 isotropic resolution. I have an MPRAGE scan and a Gradient echo, and want to coregister the data before processing to correct for inhomogenities, but unsure whether I can use FSL instead of SPM. I am following these instructions: https://surfer.nmr.mgh.harvard.edu/fswiki/HiResRecon
I am new to SP8 and not sure what I would have to do with this information specifically: (i1./i2 .* (i2>20)) .* 100.
Also, is it possible to just use the recon-all process or would you recommend going through each step individually outlined above? Is the second option the option for keeping the voxels at 0.8? Furthermore, I read somewhere that you have to use the -cm -aseg command to keep the voxels the same. is this true?
Best wishes and many thanks, Lucy
freesurfer@nmr.mgh.harvard.edu
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Bruce Fischl -
Lucy Hiscox