External Email - Use Caution Thank you Bruce. This really helped.
----- Original Message ----- From: "Bruce Fischl" <fis...@nmr.mgh.harvard.edu> To: "freesurfer" <freesurfer@nmr.mgh.harvard.edu> Sent: Thursday, May 31, 2018 6:40:16 PM Subject: Re: [Freesurfer] white matter and grey matter Hi Ritesh Ruopeng can help you with freeview, but you can always extract any set of labels from the aparc+aseg and binarize them if you wish (mri_extract_lables, mri_binarize) cheers Bruce On Thu, 31 May 2018, Ritesh Mahajan wrote: > External Email - Use Caution > > Hello Bruce, > > Yes, i do want segmentation. But i am more interested in getting just white > matter and grey matter in segmented brain. As the segmentation results also > have left ventricles and right ventricles and other parts as well. I am more > interested in just getting white matter + grey matter of brain. How can i get > this ? > > Also, I looked at aparc+aseg.mgz, when i try to see 3D of it, using > free-view. I see half brain in 3D. How can i see the 3D of segmented brain. > > Thanks, > Ritesh Mahajan > > ----- Original Message ----- > From: "Bruce Fischl" <fis...@nmr.mgh.harvard.edu> > To: "freesurfer" <freesurfer@nmr.mgh.harvard.edu> > Sent: Wednesday, May 30, 2018 7:26:37 PM > Subject: Re: [Freesurfer] white matter and grey matter > > Hi Ritesh > > can you clarify what you mean? Do you want a segmentation? You can get > that in the aparc+aseg.mgz at the end of the recon-all processing. > > cheers > Bruce > On Wed, > 30 May 2018, Ritesh Mahajan wrote: > >> External Email - Use Caution >> >> Hello Team, >> >> 1) How can i just get the white matter and grey matter together? >> 2) At what stage of free-surfer i can get this? >> >> I tried looking at the brainmask.mgz at the end of recon-all -autorecon1 >> stage. But, it looks like it has CSF and other parts of brain as well. >> >> Can you please help me out with this? >> >> Thanks, >> Ritesh Mahajan >> >> >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> >> >> > _______________________________________________ > 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 > > > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
