Jim, Attached are two scripts for getting the union or intersect of two label files.
Nick On Thu, 2009-08-27 at 20:32 -0500, James Porter wrote: > Hello- > > Is there a simple way to obtain the intersection of two labels, output > into a third label? Or the intersection of a label and an .mgh file > output by mri_surfcluster? > > For instance, I have a cluster defined by mri_glmfit/mri_surfcluster > that spans multiple anatomical regions, and I want to investigate the > values from subsections of the cluster. That is to say, I want to run > mris_anatomical_stats on only the section of my cluster that covers, > say, precentral cortex but not caudal middle frontal or pars opercularis. > > I've tried several strategies without success. The most promising seemed > to be just having mri_surfcluster output an aparc file, and then pass > that aparc file into mris_anatomical_stats. However, that aparc just > puts the very first region definition to every vertex. The same happens > if I run mri_label2aparc on the labels output by mri_surfcluster. This > happens no matter which LUT or ctab I use, i.e., with aparc.annot.ctab > the whole volume gets labeled "bankssts" and with FreeSurferColorLUT.txt > every vertex in the cluster volume gets labeled "Left-Cerebral-Exterior." > > I guess there are a few issues in this email, but the most important one > to me is being able to run mris_anatomical_stats on the union of a > cluster file and the individual regions from the standard aparc atlas. > > Any suggestions? > > Thanks in advance, > --------- > Jim Porter > Graduate Student > Clinical Science & Psychopathology Research > University of Minnesota > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > >
labels_union
Description: C-Shell script
labels_intersect
Description: C-Shell script
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