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 > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
