[Freesurfer] Surface area and curvature

2009-04-29 Thread Richard Frye
What is the best reference regarding the calculation of surface area and surface curvature and are there any studies looking at the reliability of these measures? Thanks Best Wishes, Richard E. Frye, M.D., Ph.D., F.A.A.P. Assistant Professor of Pediatrics and Neurology University of Texas Medical

[Freesurfer] Question about qdec smoothing

2008-12-08 Thread Richard Frye
>From my understanding qdec fits a glm to each vertex. It also smooths the data. >From the documentation I do not have a clear understanding of whether qdec uses smoothed data for input (It appears that is does) or smooths the coefficients or t-tests after analysis, or both. Additionally, the res

[Freesurfer] qdec -- Cannot allocate memory

2008-10-11 Thread Richard Frye
I am running qdec on a Mac Pro OS X 10.5.5 with dual quad pentiums mirrored RAID and 16GB memory. I have followed the instruction for creating the qdec table, loaded the data in successfully and requested an analysis with two continuous variance. The following is the final output before it crashes

[Freesurfer] Subject Averaging

2008-09-30 Thread Richard Frye
Is there any documentation regarding the specifics of the process of subject averaging. Specifically, I am unclear on how the parcellation and cortical thickness is derived for the average subject. Is this information averaged from the input subjects or is it derived from the newly formed average v

[Freesurfer] Assertion failed at line 827 in file templates/CachedArray.cc

2007-08-15 Thread Richard Frye
While running freesurfer I obtain the following error message Assertion failed at line 827 in file templates/CachedArray.cc nu_estimate_np_and_em: crashed while running volume_stats (termination status=256) nu_correct: crashed while running nu_estimate_np_and_em (termination status=256)ERROR: nu_c

[Freesurfer] missing transforms/talairach.xfm

2007-07-06 Thread Richard Frye
For some reason my mris do not have a transforms/talairach.xfm file (created in old version of freesurfer) Is there any way of creating this file without going through the entire freesurfer workflow? Thanks Rich -- Best Wishes, Richard E. Frye, M.D., Ph.D., F.A.A.P. Assistant Professor of Pedi