The difference is probably due to the partial volume correction, which will be different with different segmentations
On 11/06/2017 03:06 PM, Ehsan Tadayon wrote: > Thanks Bruce > Thanks Doug > > that was a great help. I was able to run it as you mentioned. I also > tried to see if I can get the same values as aseg.stats file that you > mentioned. I created a binarized mask from aseg.mgz for a structure > and ran the same command. However, the values that I get are a little > bit different from aseg.stats file. I used mri_segstats as you mentioned. > > thanks again for your help. > best, > Ehsan. > > > On Sun, Nov 5, 2017 at 1:34 PM, Douglas Greve > <gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu>> wrote: > > Look in the recon-all.log file for the command that generates the > aseg.stats file. Use that command but change aseg.mgz to whatever > your mask is (and change the output). Don't include the LUT on the > command line. > > > On 11/1/17 10:24 PM, Ehsan Tadayon wrote: >> Hello FS experts, >> >> I'm trying to get the volume of a binary mask on orig.mgz. I know >> that FS uses a more sophisitcated approach than simply counting >> the number of voxels within the mask and I'd like to apply the >> same approach. Is there any way to get the volume for a defined >> mask with the same approach that FS computes the volumes for >> aseg.mgz? >> >> thanks. >> Ehsan >> >> >> >> >> >> >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu >> <mailto:Freesurfer@nmr.mgh.harvard.edu> >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> <https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer> > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > <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 > <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 -- 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
