Surface shape is the way I would characterize it. We would at times segment the white/gray/other differently than Freesurfer along that boundary. But at the same time it is hard to tell exactly how it should be segmented, but could possibly be improved by manual edits.
-- Stephen Tyree Neuroimaging Computer Scientist Laureate Institute for Brain Research Tulsa, OK, USA On Wed, Jul 29, 2009 at 10:35 AM, Bruce Fischl <fis...@nmr.mgh.harvard.edu>wrote: > do you mean noise in the surface placement or in the parcellation labels? > > On Wed, 29 Jul 2009, Stephen Tyree wrote: > > Rahul, thanks for the ref to the atlas definitions. Is there a similar >> definition for the cortex mask (?h.cortex.label)? >> >> Bruce, yes we are using the latest version. Some of our surfaces seem to >> exhibit a lot of noise between the anterior cingulate and the corpus >> callosum, sometimes encroaching on the ac. We are trying to determine if >> manual editing of the surfaces will improve that region sufficiently to >> justify the time spent and the introduction of human bias to surface >> reconstruction. Any advice? >> >> -- >> Stephen Tyree >> Neuroimaging Computer Scientist >> Laureate Institute for Brain Research >> Tulsa, OK, USA >> >> >> On Tue, Jul 28, 2009 at 6:20 PM, Bruce Fischl <fis...@nmr.mgh.harvard.edu >> >wrote: >> >> sure, you could edit it. You'll want to look at the volume as well. What >>> version are you using? I think we improved this sometime in the past year >>> (using the improved callosum labels) >>> >>> cheers >>> Bruce >>> >>> >>> >>> On Tue, 28 Jul 2009 ra...@nmr.mgh.harvard.edu wrote: >>> >>> Hi Stephen, >>> >>>> >>>> For the ?h.aparc.annot atlas, the boundary definitions are included in >>>> the >>>> Desikan et al., 2006 paper (Neuroimage). >>>> >>>> Best, >>>> >>>> Rahul >>>> >>>> One of the regions we are investigating using a surface-based analysis >>>> is >>>> >>>>> the anterior cingulate. In some of our surface reconstructions, parts >>>>> of >>>>> this region are excluded from the ?h.cortex.label files. What are the >>>>> criteria that Freesurfer uses to determine those boundaries? Could >>>>> manual >>>>> editing around the boundary reliably extend the usable surface in that >>>>> area? Thanks. >>>>> >>>>> -- >>>>> Stephen Tyree >>>>> Neuroimaging Computer Scientist >>>>> Laureate Institute for Brain Research >>>>> Tulsa, OK, USA >>>>> _______________________________________________ >>>>> Freesurfer mailing list >>>>> Freesurfer@nmr.mgh.harvard.edu >>>>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>>>> >>>>> >>>> _______________________________________________ >>>> Freesurfer mailing list >>>> Freesurfer@nmr.mgh.harvard.edu >>>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>>> >>>> >>>> >>>> >>>> >>
_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
