Re: [Freesurfer] recon1: brain missing

-- On Fri, 19 Nov 2010, suzanne oosterwijk wrote: > Hi, > > I have been running recon1 recently and I have noticed that for some of my > participants big chunks are missing in the brainmask.mgz. Out of 20 > participants, five participants have this problem. The pattern is similar > across participants: the missing parts start around slice 70-50 at the > bottom (cerebellum) and then move upward. The data can be found in: > > /autofs/space/boggart_001/users/oosterwi/construct_struc > > It concerns constr011 (which I corrected using the clone method), and > constr012, constr016, constr019 and constr020 (which still show the > problem). > > I think it can be solved by cloning the T1 (aux volume) as is explained in > the Freesurfer tutorial. Still, I wonder whether this is the best solution, > and why this is happening in the first place. > > I appreciate any help or feedback on this. Thanks in advance! > kind regards, > Suzanne Oosterwijk > >