Thanks Bruce. Jing
> Date: Fri, 16 Sep 2011 08:38:55 -0400 > From: fis...@nmr.mgh.harvard.edu > To: k...@nmr.mgh.harvard.edu > CC: s...@nmr.mgh.harvard.edu; jennifer_g_gold...@rush.edu; vy_d...@rush.edu; > freesurfer@nmr.mgh.harvard.edu; mj_com...@hotmail.com > Subject: Re: [Freesurfer] manual editting problem > > p.s. you also have topological defects there, which you can tell as the > orig (green) surface doesn't follow the voxels in the wm.mgz. The > interventions Khoa suggests should help this as well. If you are missing > that much wm you probably want to use control points. > > cheers > Bruce > > > > On Thu, 15 Sep 2011, k...@nmr.mgh.harvard.edu > wrote: > > > Hi Jing, > > > > You have some white matter voxels missing in the wm.mgz for the rh. You > > can add some wm to that volume using the edit tool or you can also try > > control points. If you are adding wm, make sure you select the aux volume > > on the brush info toolbox. Fill in wm voxels for all slices. Control > > points would help with extending the pial surf on the lh. > > > > -Khoa > > > >> > >> Hi Bruce and Sita: > >> > >> Thanks for your relay. And Here are the images. > >> > >> Jing > >> > >> > >> > >> From: Jing Ming [mj_com...@hotmail.com] > >> > >> Sent: Thursday, September 15, 2011 7:31 PM > >> > >> To: Vy Dinh > >> > >> Subject: FW: [Freesurfer] manual editting problem > >> > >> > >> > >> > >> > >> > >> > >> > >> > >> > >>> CC: mj_com...@hotmail.com; jennifer_g_gold...@rush.edu; vyd...@rush.edu; > >>> freesurfer@nmr.mgh.harvard.edu > >> > >>> From: fis...@nmr.mgh.harvard.edu > >> > >>> Subject: Re: [Freesurfer] manual editting problem > >> > >>> Date: Thu, 15 Sep 2011 20:07:41 -0400 > >> > >>> To: s...@nmr.mgh.harvard.edu > >> > >>> > >> > >>> Can you send an image? > >> > >>> > >> > >>> > >> > >>> > >> > >>> On Sep 15, 2011, at 6:38 PM, Sita Kakunoori <s...@nmr.mgh.harvard.edu> > >>> wrote: > >> > >>> > >> > >>>> > >> > >>>> How does the wm.mgz look. Correcting the white surface will correct > >>> the > >> > >>>> pial surface as well. > >> > >>>> > >> > >>>> Sita. > >> > >>>> > >> > >>>> > >> > >>>> On Thu, 15 Sep 2011, Jing Ming wrote: > >> > >>>> > >> > >>>>> > >> > >>>>> Hi Surfers: > >> > >>>>> We have been coming > >> > >>>>> across several gray matter regions that are not included within the > >>> pial > >> > >>>>> surface (red line) when it should be (e.g., very anterior parts of > >>> the > >> > >>>>> temporal lobe). From my understanding of similar posts on the forum, > >>> it > >> > >>>>> seems that there isn't a way to add this region to the pial surface > >>> so > >> > >>>>> that the missing brain matter is included. We have tried using the > >>> clone > >> > >>>>> tool to fill in this region, as per the tutorial and have > >>> experimented > >> > >>>>> with this tool using the tutorial data. I followed the steps in the > >> > >>>>> tutorial but could not observe any changes when the middle button was > >> > >>>>> selected. Does anyone have any ideas on how to troubleshoot this > >> > >>>>> issue? Can someone please explain to me why this is not possible? > >>> Also > >> > >>>>> how does Freesurfer determine what regions to include within the pial > >> > >>>>> surface? If there is a way that has been developed recently, please > >> > >>>>> enlighten me. > >> > >>>>> > >> > >>>>> -Jing > >> > >>>> _______________________________________________ > >> > >>>> 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
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