Hi Melanie doing it in tkmedit (or freeview) would be doing it manually. But if you do it this way it should allow you to correct the resulting surfaces and such
cheers Bruce On Wed, 12 Feb 2014, Melanie Morrison wrote: > > > Thanks,Melanie Morrison > > Begin forwarded message: > > From: Bruce Fischl <fis...@nmr.mgh.harvard.edu> > Date: 12 February, 2014 1:21:56 PM EST > To: Melanie Morrison <melanie.morri...@hotmail.com> > Subject: RE: [Freesurfer] How to avoid tumour from being > segmented out > > Hi Melanie > > can you cc the list so that others can answer? > > thanks > Bruce > On Wed, 12 Feb 2014, Melanie Morrison wrote: > > Thanks. I can just do this manually? Can I over lay > this on my anatomical > > map somehow so I can manually outline the correct > boundaries. > > > Date: Wed, 12 Feb 2014 11:51:14 -0500 > > > From: fis...@nmr.mgh.harvard.edu > > > To: melanie.morri...@hotmail.com > > > CC: freesurfer@nmr.mgh.harvard.edu; > astev...@nmr.mgh.harvard.edu > > > Subject: Re: [Freesurfer] How to avoid tumour from > being segmented out > > > > > > Hi Melanie > > > > > > you should be able to fill it in in the wm.mgz > volume in either tkmedit > > > or freeview (using 255 if in freeview - tkmedit > will do this by default) > > > > > > cheers > > > Bruce > > > On > > > Wed, 12 Feb 2014, Melanie Morrison wrote: > > > > > > > Hi there, > > > > > > > > I am creating surfaces from my volume T1-weight > scans so that I can run > > them > > > > in AFNI's SUMA program. > > > > Problem is that my tumour has been segmented out > because its intensity > > and > > > > the intensity of its surround area is much lower > that what is being > > > > segmented. > > > > > > > > How can I avoid this? Or edit this? I need my > functional MRI data to be > > > > displayed around the tumour region which is now > unfortunately cut out. > > > > (HELPP!!!) > > > > > > > > > > > > Thanks, > > > > Melanie Morrison > > > > > > > > > > > _______________________________________________ > > > 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
