Can you compute the registration between the manually traced anat space and the FS conformed space? Eg, with BBR. If you can do that, then you can run mri_label2vol to convert the mask into FS conformed space (assuming that that is what you want to do). doug
On 03/22/2013 04:43 PM, Joshua Lee wrote:
Hi All,
I wanted to get peoples advice on the best method of registration/interpolation to use on a manually traced segmentation (and its structural) that is not in the same space and orientation as the structurals I started Freesurfer with (although they both originally came from the same image. I want to maintain the integrity of the manual traced binary mask through this registration and reslice. For a number of reasons, I do not want to take Freesurfers output to the space of the manual segmentation.
What do people think is a good technique? Flirt nearest neighbor interpolation? Something different from Freesurfer? ANTs?
Josh
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