[Freesurfer] using T2 or flair images

2014-11-08 Thread will brown
Hi there, I have completed recon-all on a subject but the output is terrible. I have since found multiple series on the CD that was supplied for the subject's scan using "dcmunpack" the output was: Found 7 unique series: 1 4 5 6 7 8 9 Subject X Date 20120114 Time 082517 Institution Hagley Rad

Re: [Freesurfer] Pial edits and wm control points.

2014-11-08 Thread Bruce Fischl
I'll leave 1 for Ruopeng. For 2, usuually I'll do a little cluster ofr 3-4 together in an area, then a big space to the next cluster, but probably even only 1 would be fine. 2-5mm is much denser than the cluster spacing needs to be. For 3, yes that is fine On Fri, 7 Nov 2014, Octavian Lie wrot

Re: [Freesurfer] Pial edits and wm control points.

2014-11-08 Thread Octavian Lie
Thank you, Bruce. For point 1, a nice alternative would be to be able to edit brainmask.mgz while T1.mgz is displayed instead. As for the control points, I generated one set in freeview, but when saving it with 'save as', it did not give me an option where to save it, and it did it in 'home' and n