Alternatively, is there another way to calculate the binzarized threshold min and max based on multiples of the standard deviation of the global mean?
Thanks!
On June 9, 2016 at 12:54:25 PM, Lakhani, Bimal (bimal.lakhani@ubc.camailto:bimal.lakhani@ubc.ca) wrote:
Good afternoon,
I am trying to run a fairly simple mri_binarize command on FS v 5.3, Linux 64bit, but when I use the option — rmax, I am getting an error that says the —rmax option is not recognized. It is made weirded because —rmin works perfectly.
Here is the command line and the following error:
boydsrv01:~/Desktop/Arrowsmith/Freesurfer/Output> mri_binarize --i '/home/boydadmin/Desktop/Arrowsmith/Freesurfer/Output/Scan1/R07_MWF2Brain.mgz' --rmax 1.95 --o '/home/boydadmin/Desktop/Arrowsmith/Freesurfer/Output/Scan1/R07__MWF2Brain.bin.mgz’
ERROR: Option --rmax unknown
Thanks very much! Bimal
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