Re: [Freesurfer] inconsistencies in surface segmentation and aseg.mgz

2010-02-27 Thread Bruce Fischl
Hi Joon, it means that for morphometric purposes we use the white matter and cortical estimates from the surfaces. The aseg is still used for various things, including volume estimates of hippocampus, amygdala, etc... cheers Bruce On Sat, 27 Feb 2010, Joonkoo Park wrote: > Dear surfers, > >

[Freesurfer] inconsistencies in surface segmentation and aseg.mgz

2010-02-27 Thread Joonkoo Park
Dear surfers, I was visually inspecting the results of the auto-recon process using tkmedit (e.g. tkmedit subject brainmask.mgz lh.white -aux T1.mgz -aux-surface rh.white -segmentation aseg.mgz /usr/local/freesurfer/FreeSurferColorLUT.txt) I noticed that often times the segmentation results from

Re: [Freesurfer] Destrieux boundaries Insular cortex

2010-02-27 Thread Bruce Fischl
Christophe has a manuscript that isn't published yet, so you can either cite that or his recent HBM abstract (which he can point you at). cheers, Bruce On Sun, 28 Feb 2010, Lena Palaniyappan wrote: > Is there any reference available for tracking the boundaries of 5 > parcellations within insula

[Freesurfer] Destrieux boundaries Insular cortex

2010-02-27 Thread Lena Palaniyappan
Is there any reference available for tracking the boundaries of 5 parcellations within insula as given by Destrieux a2009s? Cheers Lena ___ Lena Palaniyappan Clinical Lecturer & Honorary StR | Division of Psychiatry ( University of Nottingham)

Re: [Freesurfer] Optseq2 - Incorporate sequential order of trials as a factor

2010-02-27 Thread Gaber, Tilman
Thank you for your quick response. Initially I had the same idea. Unfortunately, this easy solution does not work. All trials are successor of the previous and predecessor of the following trial. Therefore we can't just randomly distribute pairs of trials. The whole chain of trials has to be in