Re: [Freesurfer] volume in native space of .vtk file in mni152 space

You can use mri_segstats passing newoutputfile as the --seg

On 04/19/2017 06:47 PM, Corinna Bauer wrote:

Dear all,

I have a series of .vtk files in MNI152 1mm space from an external thalamus atlas outlining specific thalamic nuclei. I would like to put these into native subject space and calculate the volume from each nuclei.

I would imagine that I would do the following:

1. run mni152reg --s --1 on each subject
2. mri_vol2vol --mov mni152space_atlas_file.nii.gz -- targ

subject/mri/orig.mgz --reg subject/mri/mni152.orig.mgz.reg --inv --o newoutputfile_subject_space

But then I am not certain how to calculate the volume of the new output file.

Suggestions?

Thanks!

Corinna

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