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 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.
