Hi Juan, Thanks! You're right, they really are tightly correlated (although their absolute values differ by 30%). We tried it on couple of subjects, but didn't find subfields to be significantly better than aseg stats though. By the way, is Freesurfer capable of using multiple scans from the same subject (longitudinal study, same modality) to make more precise measurements? For example by using T1 from the same subject / different time instead of T2 in subfields?
Thanks! Mojmir On Wed, Jul 13, 2016 at 5:15 PM Iglesias, Eugenio <e.igles...@ucl.ac.uk> wrote: > Hi Mojmir, > ASEG typically gives a larger estimate of the volume, though highly > correlated with that from the subfield package. We have found the > measurements from the subfield package to be a bit more reliable, though. > Cheers, > Eugenio > > Juan Eugenio Iglesias > Translational Imaging Group > University College London > http://www.jeiglesias.com > http://cmictig.cs.ucl.ac.uk/ > > > On 13 Jul 2016, at 16:07, Mojmír Vinkler <mojmir.vink...@gmail.com> wrote: > > Hi experts, > > I'm using Freesurfer 6.0 dev version (Mac) to perform hippocampal > subfields segmentation. I only need to measure total hippocampus volume, > but measurements from basic `recon-all` were too volatile and I was hoping > that using subfields with T2 modality would reduce variance. However, > volume measured by hippocampal subfields is significantly different from > volume in aseg.stats. > > Here are volumes for right hippocampus from various methods: > aseg.stats - 3312.8 > rh.hippoSfVolumes-T1.v10.txt (Mode A - only T1 used) - 2883.8 > rh.hippoSfVolumes-T2.v10.txt (Mode B - using only additional scan) - > 2503.97 > rh.hippoSfVolumes-T1-T1T2.v10.txt (Mode B - Multispectral segmentation) > - 2596.09 > > I checked labeling visually and there were no obvious problems. Is such a > large difference common? Am I missing something? What number should be most > trusted? > > Thanks for any hints! > Mojmir > > _______________________________________________ > 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 > > > 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. >
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