Hi KK
this is something i wrote for myself, but you are welcome to try it out. YOu don't need to give it the slope stuff, that is optional. The "vol" command line parms are the volumes that you want to assess CNR in. For example:
mri_cnr ~/local_subjects/bruce/surf ~/local_subjects/bruce/mri/norm.mgz processing MRI volume /homes/4/fischl/local_subjects/bruce/mri/norm.mgz... white = 95.8+-9.7, gray = 65.3+-17.9, csf = 40.1+-17.2 gray/white CNR = 2.241, gray/csf CNR = 1.026 lh CNR = 1.633 white = 95.7+-9.9, gray = 65.5+-17.8, csf = 41.5+-17.4 gray/white CNR = 2.205, gray/csf CNR = 0.937 rh CNR = 1.571 total CNR = 1.602
On Mon, 18 Jun 2012, Kushal Kapse wrote:
hi fellas,
i am trying to run mri_cnr command in freesurfer to compute and see CNR for gray/white/csf.... the command gives following info as help:
-bash-3.2$ mri_cnr usage: mri_cnr [options] <surf directory> <vol 1> <vol 2> ... -s <slope fname> <dist in> <dist out> <step in> <step out>
i understand that 'surf directory'= subjects 'surf' folder ; but i am not able to figure out what it means by vol1, vol2 and slope fname......it doesnt show any error but just doesnt do anything even if i mention the surf directory to this command.....
i checked on freesurfer mail archive, but no info since 2009 about any update on this command.....
may someone please give an info if anyone ever used this command
thanks kk _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer