Re: [Freesurfer] Monte Carlo Simulation Precomputed Data

Yes, when looking at the corrected images, the Threshold Min because the clusterwise threshold. So if you want to see only clusters that have a clusterwise p<.05, set that threshold to 1.3

doug

On 01/28/2014 02:24 PM, Natasha Haris wrote:

The clusterwise simulation runs with a p<0.05 threshold value and a blob appears. However, am I supposed to enter this threshold value corresponding to p<0.05 (namely 1.3) into the box labeled threshold min= ?

On Mon, Jan 27, 2014 at 8:43 AM, Douglas N Greve <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu> wrote:

On 01/24/2014 11:54 AM, Natasha Haris wrote:
> Dear Freesurfers,
>
> I am slightly confused about the monte carlo simulation.
>
> First off, I only find a blob when I run the p<0.05 threshold
level and don't see anything else when I run simulations with p
less than that. What does this mean?
Which threshold level? clusterforming/voxelwise or clusterwise? If
clusterwise, then it just means that you have a cluster whose p
value is
just under .05 so you lose it by going to a more stringent threshold.
>
> Additionally, when I click on any question of interest after
running this p<0.05 simulation (for ex. "Does the average
thickness, accounting for Group, differ between male and female?"
I get the same blobs that I found before I ran this precomputed
simulation. Is the simulation not running correctly? Am I supposed
to enter this threshold value (1.3) into the area marked Threshold
min= and max=5.
Are you sure it is exactly the same? Look to see if there are some
very
small blobs that disappear. Otherwise, it may be that the blobs
you have
are all significant.
>
> Thank you for your help!
> Natasha
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>

--
Douglas N. Greve, Ph.D.
MGH-NMR Center
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