It is not subsegmented in 6.0 either:). When you run gtmseg, it will create the new segmentation that include pons and a few other things
On 12/15/2015 12:56 PM, Matthieu Vanhoutte wrote: > Dear Douglas, > > Please see below : > > 2015-12-15 18:37 GMT+01:00 Douglas N Greve <gr...@nmr.mgh.harvard.edu > <mailto:gr...@nmr.mgh.harvard.edu>>: > > > > On 12/15/2015 04:46 AM, Matthieu Vanhoutte wrote: > > Dear experts, > > > > Could anyone answer to my questions below ? > > > > Thanks ! > > > > Best regards, > > Matthieu > > > > 2015-12-10 10:10 GMT+01:00 Matthieu Vanhoutte > > <matthieuvanhou...@gmail.com > <mailto:matthieuvanhou...@gmail.com> > <mailto:matthieuvanhou...@gmail.com > <mailto:matthieuvanhou...@gmail.com>>>: > > > > Dear FS experts, > > > > 1) First Is it possible to use the partial volume correction > > provided in the v6 beta version of FreeSurfer despite the fact > > that recon-all have been done for all subjects with the v5.3 ? > > > Yes > > > Great ! but isn't it a problem for computing rSUV with pons as > reference structure since brainstem isn't sub-segmented in the version > 5.3 of recon-all ? > > > > > > > 2) Does this method supply an intensity normalisation for > PET images ? > > > What do you mean by intensity normalization? For uptake analysis, > people > usually use SUV (standard uptake values where the whole image is > scaled > by a value related to the injection mass and subject weight) or you > choose a reference structure to scale by (often called rSUV for > relative). By default mri_gtmpvc uses pons, but you can choose any > structure you want with the --rescale flag > > > > > > > Best regards, > > Matthieu > > > > > > > > > > _______________________________________________ > > Freesurfer mailing list > > Freesurfer@nmr.mgh.harvard.edu > <mailto:Freesurfer@nmr.mgh.harvard.edu> > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > -- > > > Best regards, > Matthieu > > Douglas N. Greve, Ph.D. > MGH-NMR Center > gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu> > Phone Number: 617-724-2358 <tel:617-724-2358> > Fax: 617-726-7422 <tel:617-726-7422> > > Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting > <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> > FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 > www.nmr.mgh.harvard.edu/facility/filedrop/index.html > <http://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 <mailto: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 -- 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
