We can create nifti files easily enough, but due to a shortcoming in the nifti header, it cannot represent structures with number of items exceeding 32k. The number of vertices is usually over 100k. If you use mri_surf2surf to do the conversion, you can "reshape" the structure size so that it fits, eg,
mri_surf2surf --s subject --hemi lh --sval lh.thickness --tval lh.thickness.nii --reshape
Note that this only works if the number of vertices has prime factors less than 32k
doug
On 12/04/2013 09:47 AM, Bruce Fischl wrote:
Hi Kaiming
you can use mris_thickness to create a nifti thickness file if you want. They might be able to read .mgz, I'm not sure.
cheers Bruce On Wed, 4 Dec 2013, Kaiming Yin wrote:
Dear FS guys, I have run the FS 5.3 and get thickness files e.g. lh.thickness and rh.thickness, could FSL read these? should we use files like nii instead of mgz, or is there some options for FSL to read mgz too?
Thanks, Kaiming
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