Is that the only (relatively convenient) way to get this data? I'm not sure if we're ready to start reprocessing all of our subjects. I noticed that the selxavg-sess command had a "-svsnr" argument for "save estimate of SNR to analysis/estsnr". Would this give me the relevant data? My main concern is that I used "selxavg3-sess" instead of "selxavg-sess" during processing; I'm not sure what the difference between the two is, and I am hesitant to use a different command that might change other aspects of our data.
-Adam
yep, stable 5
doug
Adam Nitenson wrote:
Hi Doug,
Is the fsnr.dat a Stable 5 feature? I'm working on Stable 4, andcannot find this file in my analysis directory,
e.g. /cluster/roffman/users/folate_subjects/FB0011099AA/bold/fmcsm5_functionals
...or anywhere else in the subject directory. All I see are the fsnr.nii overlay files.
-Adam
There should be an fsnr.dat file in the fsfast analysis directory with the value that you want.
doug
On 12/20/10 1:30 PM, Adam Nitenson wrote:
Hello Freesurfers,
We are beginning to perform QC on our subjects and want to lookat signal to noise ratio. I've taken a look at the fsnr.nii overlay files, but we would like to be able to calculate a whole surface value for SNR for each functional run of each subject, so that we can exclude runs if that SNR values falls below our designated threshold. Is there a way to accomplish this?
Thanks,
Adam Nitenson, B.S. Brain Genomics Lab Massachusetts General Hospital _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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Adam Nitenson, B.S. Brain Genomics Lab Massachusetts General Hospital
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Adam Nitenson, B.S. Brain Genomics Lab Massachusetts General Hospital