Can you send me the aseg.stats file for a single subject where you are seeing this effect? doug
On 11/08/2012 03:45 AM, Zheng Hui wrote: > Hi Doug, I sum all structures except ventricle, CSF, cerebellum and > brainstem in order to compare with SubCortGrayVol. Even the former > includes some white matter structures and all subcortical structures, > it is smaller compared to SubCortGrayVol. > > My original question is about calculating the total cerebral volumes, > when I found *CortexVol + CorticalWhiteMatterVol + SubCortGrayVol* is > much bigger than *CortexVol + CorticalWhiteMatterVol + Sum(all > structures (after ICV in the list) except ventricle, CSF, cerebellum > and brainstem)*. > > Hope I explained it better this time. > > Cheers, > Zheng Hui > > On 11/6/12 2:14 AM, "Douglas N Greve" <gr...@nmr.mgh.harvard.edu > <mailto:gr...@nmr.mgh.harvard.edu>> wrote: > > Hi Zheng, there is something wrong with your math. When I sum up > all the > columns in your table from Left-Lateral-Ventricle to CC_Anterior, > I get > 215952 for the first row (you get only 67548). Can you double > check your > calculations? > doug > > On 10/28/2012 11:53 PM, Zheng Hui wrote: > > Forgot to attach the excel file. Sorry for that. > > From: zhenghui <zheng....@duke-nus.edu.sg > <mailto:zheng....@duke-nus.edu.sg> > <mailto:zheng....@duke-nus.edu.sg> > <mailto:zheng....@duke-nus.edu.sg%3E>> > Date: Monday, October 29, 2012 11:52 AM > To: Douglas N Greve <gr...@nmr.mgh.harvard.edu > <mailto:gr...@nmr.mgh.harvard.edu> > <mailto:gr...@nmr.mgh.harvard.edu> > <mailto:gr...@nmr.mgh.harvard.edu%3E>> > Subject: [Freesurfer] Total cerebral volume. > > Hi Doug, > > Thanks for replying. But our datasets do showed that > Sum(all structures (after ICV in the list) except ventricle, CSF, > cerebellum and brainstem) is much smaller SubCortGrayVol. The > former > is only about 30-40% of the later. We are using FS 5.1.0 > without the > SupraTentorialVol fix.I attached the aseg file for your > reference (the > last three columns in the sheet). > > Thanks, > Zheng Hui > > On 10/24/2012 09:01 AM, Zheng Hui wrote: > > > > Hi freesurfer, > > > > We are trying to calculate the total cerebral volume which > excludes > cerebellum, brainstem, ventricle and CSF from the aseg.txt. Do > we use > > > > CortexVol + CorticalWhiteMatterVol + SubCortGrayVol > > Or > > CortexVol + CorticalWhiteMatterVol + Sum(all structures > (after ICV in > the list) except ventricle, CSF, cerebellum and brainstem) > This should give very close to the same value. I don't think > it makes a > difference. > > > > > > Also, I saw Doug's post about the bug fixing for > SupraTentorialVol. > To re-run the segstats for longitudinal subjects, any extra > step other > than "recon-all –long tpN baseID –segstats" and does it affect > any > other structure or just SupraTentorialVol? > It should not affect other structures. > doug > > > -- > Douglas N. Greve, Ph.D. > MGH-NMR Center > gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu> > Phone Number: 617-724-2358 > Fax: 617-726-7422 > > Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting > FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html > > > > 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. > > -- 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: www.nmr.mgh.harvard.edu/facility/filedrop/index.html _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
