Hi Doug,
Sorry which file should the mri_segstats command be in? Also, I am still
unclear on how the individual values in cache.th13.abs.y.ocn.dat are
calculated. Could you possibly explain this?
Kind regards,
Bronwyn Overs
Research Assistant
Neuroscience Research Australia
Neuroscience Research Australia
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On 13/04/2015 11:34 pm, Douglas Greve wrote:
I'm not sure what the problem is, but it occurs to me that computing
the mean over the cluster is probably not what should be done.
Instead, the total should be computed. In the header of that file,
there should be a command line for mri_segstats. Cut and paste that
into a shell and add --accumulate and see if the numbers get more
reasonable.
doug
On 4/6/15 9:48 PM, Bronwyn Overs wrote:
Dear Freesurfer Mailing List,
I have just run a GLM analysis using mri_glmfit with area as the
measure of interest. For each of my significant contrasts, I
extracted the mean area for each subjects from the corresponding
cache.th13.abs.y.ocn.dat file. I then plotted these values to examine
the nature of the interaction. In doing so I identified three
individuals who had extreme mean area values (up to 11 sd from the
average of the mean area) for many of the significant clusters. For
each of these individuals I cannot see any problems with the
freesurfer .mgz files or the cortical segmentation.
So my questions are:
1. Are extreme mean values for significant clusters in GLM a problem?
If so, do you have any idea what could be causing these values if the
scans appear to be well segmented?
2. If the significant clusters are calculated at a group level, how
are the individual mean values (in cache.th13.abs.y.ocn.dat) generated?
--
Kind regards,
Bronwyn Overs
Research Assistant
Neuroscience Research Australia
Neuroscience Research Australia
Margarete Ainsworth Building
Barker Street Randwick Sydney NSW 2031 Australia
*M* 0411 308 769 *T* +61 2 9399 1883 *F* +61 2 9399 1265
neura.edu.au <http://neura.edu.au>
Follow @neuraustralia on twitter
<https://twitter.com/neuraustralia>Follow NeuRA on facebook
<https://www.facebook.com/NeuroscienceResearchAustralia>
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