Can you send me the label? doug Righart, Ruthger Dr. wrote: > Dear Freesurfers, > > I am using mri_label2label in Fs v5.0.0 to map a label between subjects. I > have some problems in that the target label shows little holes while the > location of the target label seems to correspond rather well with the source > label. Checking these holes backward to the source subject using the function > tools/send to subject in tksurfer ... brings the saved point in the source > label. > > I think this problem has been reported in the list before (see copy below) > but unfortunately I do not find a solution that removes the holes. In my case > I see this now and then both for ROIs that I drew myself in tksurfer but also > pre-defined ROIs that were already there (e.g., > rh.G_and_S_cingul-Mid-Ant.label). What might go wrong here? I am using > --regmethod surface and trgsurf white. > > I wondered further how one may check how well mri_label2label worked for each > subject. Is there a way to test that source and target labels have the same > location in terms of for example gyri and sulci? Are there cases that > mri_label2label cannot work? > > Thank you very much for your help, any suggestions appreciated! > > Ruthger Righart (PhD) > > Institute for Stroke and Dementia Research (ISD) > Klinikum der Universität München > Max-Lebsche-Platz 30 > 81377 Munich | Germany > > ruthger.righ...@med.uni-muenchen.de > > > > > http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg15125.html > > Re: [Freesurfer] Mri_label2label problem? > Douglas N Greve Tue, 21 Sep 2010 06:47:09 -0700 > what does the original label look like? Can you convert one of the > predefined labels (eg, lh.V1.label) to see if the same thing happens? > > doug > > Pye, Brandon (NIH/NIMH) [F] wrote: > >> Hey guys, >> >> We are using mri_label2label to convert a label created from a cluster >> (using >> mri_surfcluster) from an average subject to each individual subject. We >> have >> 6 individual labels that we are converting. All of the analysis is done >> using surface data. I use the command in the generalized form listed below: >> >> Mri_label2label -srcsubject fsaverage -srclabel cluster1.label -trg subject >> Subject -trglabel Subject_cluster1.label -regmethod surface -hemi lh >> >> 5 of the 6 labels transfer well, but a 6th label translated to the correct >> anatomical location, but the number of labeled vertices is greatly reduced >> after the translation. This problem persists across all subjects. There >> doesn't appear to be much interior to the label, just a lot of the outline >> of >> the label (i.e. If the outline of the label is yellow and the interior is >> blue, I see a lot of yellow and not much blue, as if there are a bunch of >> small "islands"). The region on them most inferior part of the lateral >> surface approximately where the temporal and occipital lobes meet. >> >> Any ideas what might be going on? >> >> Thanks, >> --------------------------------------------------------------------- >> Brandon Pye >> Post-Baccalaureate IRTA >> Laboratory of Brain and Cognition, NIMH/NIH/DHHS >> Building 10, Room 4C214 >> 10 Center Dr MSC 1366 >> Bethesda, MD 20892 >> Phone: (301) 402-3893 >> Fax: (301) 402-0921 >> brandon....@nih.gov >> >> >> > > _______________________________________________ > 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 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.
