Not from the T1 alone. I wrote a script called intcapseg (it may or may not be in the distribution). Below is the doc for it. I can get it to you if you want it, but it is not at all tested or validated.
doug intcapseg --s subject --ndil ndil : default is 6 --nero nerodes : default is ndil + 1 $Id: intcapseg,v 1.1 2011/03/02 18:15:47 greve Exp $ This is program that segments the internal capsule as the white matter between the thalamus and the pallidum based on the aseg.mgz. The underlying algorithm is very crude, simply using dialations and erosions of the thalamus and the pallidum segmentations. Vaidya, Jatin G wrote: > I see. > > Doug: do you consider this to be a reliably defined white matter region? > If so, would it be possible to to get some information on the tools Bruce > mentioned? > > On 10/31/11 4:40 PM, "Bruce Fischl" <fis...@nmr.mgh.harvard.edu> wrote: > > >> Doug wrote some tools to do this, but they aren't run by default. >> >> cheers >> Bruce >> On Mon, 31 >> Oct 2011, Vaidya, Jatin G wrote: >> >> >>> Hi, >>> >>> We recently processed some T1 data through Freesurfer but I did not see >>> any >>> labels for the internal capsule. Does Freesurfer still create a label >>> for >>> this region? >>> >>> Thanks, >>> >>> Jatin >>> >>> >>> >>> _________________________________________________________________________ >>> ___ >>> Notice: This UI Health Care e-mail (including attachments) is covered >>> by the >>> Electronic Communications Privacy Act, 18 U.S.C. 2510-2521, is >>> confidential >>> and may be legally privileged. If you are not the intended recipient, >>> you >>> are hereby notified that any retention, dissemination, distribution, or >>> copying of this communication is strictly prohibited. Please reply to >>> the >>> sender that you have received the message in error, then delete it. >>> Thank >>> you. >>> >>> >>> _________________________________________________________________________ >>> ___ >>> >>> >>> >> 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. >> > > > > ________________________________ > Notice: This UI Health Care e-mail (including attachments) is covered by the > Electronic Communications Privacy Act, 18 U.S.C. 2510-2521, is confidential > and may be legally privileged. If you are not the intended recipient, you > are hereby notified that any retention, dissemination, distribution, or > copying of this communication is strictly prohibited. Please reply to the > sender that you have received the message in error, then delete it. Thank > you. > ________________________________ > > _______________________________________________ > 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: 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
