Hi,
I was wondering if there is any documentation on mri_cnr, particularly how the noise is calculated. Thank you, Paul > > thanks Dr. B.....that helped a lot > > ----- Original Message ----- > From: "Bruce Fischl" <fis...@nmr.mgh.harvard.edu> > To: "Kushal Kapse" <kka...@mail.med.upenn.edu> > Cc: "freesurfer" <freesurfer@nmr.mgh.harvard.edu> > Sent: Monday, June 18, 2012 2:27:29 PM > Subject: Re: [Freesurfer] mri_cnr > > 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 > > > > > > > _______________________________________________ > 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. > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >
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