I don't know that we have a complete list in one place of just the aparc+aseg ROIs, but you can get one by running
mri_segstats --seg aparc+aseg.mgz --ctab-default --sum sum.dat then look in the sum.dat file On 11/03/2016 04:32 PM, P Taylor wrote: > Is there an available list of GM regions within the list of regions in > the FreeSurferColorLUT.txt? > > (In particular, I am interested in a list of GM regions output in a > default run of recon-all, which seems to have a maximum regionnumber > of 2035. But a full list is great, too-- I'm not sure which might be > already available or easier to generate.) > > I had thought of using the segmentation volumes to help me > differentiate ROIs. For example, I could get rid of regions that > overlap with the WM volume, but I think that the segmentation might > come from a slightly different bit of information than the sum of > segmented regions. As shown in the attached slice image, if I > underlay the WM segmentation volume (color = white), and overlay a > "recon-all" parcellation+segmentation map (color = red for GM on > right, yellow for GM on left, and green for non-GM) to look for > overlap, I see that some of the WM seg volume overlaps with GM ROIs > (overlaps are isolated pink-ish voxels and light yellow voxels; one > highlighted in cross hairs). I guess this difference occurs because > the segmentation volume comes from the surfaces themselves? > > Anyways, this makes me think that I can't automate finding the GM, and > I would rather go from LUT numbers, and hence the above question. > > Thanks, > pt > > > > _______________________________________________ > 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: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ _______________________________________________ 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.
