I also have this problem now. did this query ever resolve?
On Wed, Jun 4, 2014 at 10:55 PM, Qijing Yu yu.qijing@gmail.com wrote:
Hello FreeSufers,
I ran several analyses in qdec, and now have problem visualize previous
analyses results...which sounds dumb... Please let me know if you
Almost true.
The stacking (smoothing and mapping to eg fsaverage) is done outside of matlab,
using mris_preproc and that uses the .long.base names.
Matlab only opens that single file (stack) and reads additional info from the
qdec table. Matlab does not need access to the .long.base directories
So the mri_glmfit results are less significant than the QDEC results?
That is a little surprising because the glmfit results will have a
higher DOF. The contrast (gamma.mgh) should be the same. It may be that
your FWHM increased (compare the fwhm.dat files). You can also run the
two group
Your interpretation is right (ie, controls patients for
red/yellow/orange). When you compared the two groups in your separate
analysis, did you control for age?
doug
On 06/24/2014 02:19 PM, Emma Thompson wrote:
Hi Freesurfers,
I am reposting this as my last email bounced.
I have
This is not an easy thing to do in QDEC. An alternative is to run
mri_glmfit-sim on the QDEC output folder, setting the thresholds to the
same that you used in QDEC. mri_glmfit-sim will compute means foreach
subject and cluster.
doug
On 06/24/2014 06:40 PM, Santosh Yadav wrote:
Dear
There is no right one. aparc has fewer but larger ROIs. aparc.a2005s
has more but smaller ROIs. The smaller are going to be more specific but
probably noisier too
doug
On 06/23/2014 04:26 PM, Kristina Kuhlmann wrote:
Dear mailing-list,
I’ve got a question concerning the file types of stats
This is dying somewhere in the MNI nu_correct code. Look at the orig.mgz
to see if that looks ok
On 06/23/2014 03:58 PM, Remy Wahnoun wrote:
Thanks Douglas,
I definitely appreciate your help.
Here is what it Spit out,
*Rémy Wahnoun, PhD*
Biomedical Research Group Manager
Barrow
Thanks Doug, yes I did control for age in both instances.
On Wed, Jun 25, 2014 at 10:14 AM, Douglas N Greve gr...@nmr.mgh.harvard.edu
wrote:
Your interpretation is right (ie, controls patients for
red/yellow/orange). When you compared the two groups in your separate
analysis, did you
what software did you use? Are you sure you are using the same model as
qdec uses?
On 06/25/2014 11:03 AM, Emma Thompson wrote:
Thanks Doug, yes I did control for age in both instances.
On Wed, Jun 25, 2014 at 10:14 AM, Douglas N Greve
gr...@nmr.mgh.harvard.edu
Hi Joana,
Sorry for the delayed response. I'm a bit puzzled because it really
looks like a visualization issue in freeview. Could you please send me
the original *.mgz files, so I can try the visualization myself?
Thanks,
Koen
On Mon, Jun 23, 2014 at 9:38 PM, Joana Braga Pereira
Hi Andrea
if the surfaces are ok you probably don't need to worry about it, as we
recommend using the surface-based stats not the voxel-based ones for
cortex and cerebral white matter. It does look like the pial surface is
grabbing a bit of the tentorium, which you could fix if you care
Hi Andrea,
To regenerate the aseg.stats file after aseg edits you can run:
recon-all -segstats -s subjID
-Louis
On Wed, 25 Jun 2014, Andrea Horváth wrote:
Dear All,
After running recon-all and checked all the required steps, some part of the
right cerebral white matter was
still segmented
Hi Durai - You cannot run all 3 steps of trac-all at the same time. The 3
steps need to be run separately. Please check the tutorial on the wiki for
more details.
a.y
On Tue, 24 Jun 2014, Durai Arasan wrote:
Hi Freesurfer experts,
I tried running trac-all with my config file and received
Hi Elissa
the control point can still have an effect if the brainmask.mgz intensity
is not 110. Please make sure that you aren't adding control points to gray
matter though - that will mess everything up!
Bruce
On Wed, 25 Jun 2014, Elissa McIntosh wrote:
Hello freesurfer experts,
I have
I'm using SPSS. I'm not sure if my analysis reflects exactly what qdec is
doing, do you know which analysis in SPSS would be most appropriate? I'm
doing a simple ANCOVA.
On Wed, Jun 25, 2014 at 11:07 AM, Douglas N Greve gr...@nmr.mgh.harvard.edu
wrote:
what software did you use? Are you sure
Seeking a highly motivated and energetic post-doctoral fellow interested in
applying multi-modal neuroimaging to improve diagnostic accuracy and study
mechanisms that drive clinical and anatomic heterogeneity in Alzheimer's
disease, frontotemporal dementia and related disorders. Imaging
Hi, Would someone kindly let me know that, in order to segment a tumor in
brain, how/whether I can segment only one slice so it propagates through
the adjacent slices and cover up the tumor?
thanks,
-S
On Tue, Jun 24, 2014 at 8:31 PM, Sam Raby rabysa...@gmail.com wrote:
Thanks.
I would like
Hi Sam
no, I don't think there is anything we have that will do tumor
segmentation. I think there are some tools for manually segmenting
structures and propagating segmentations from one slice to the next.
Perhaps Ruopeng or some other power freeview user can comment?
cheers
Bruce
On Wed,
Dear experts,
In the Group stats files, there is a file of lh.a2009s.foldind (or
rh.a2009s.foldind). What's the meaning of foldind?
Thank you
Wang Kangcheng
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