...@nmr.mgh.harvard.edu] on behalf of Douglas Greve
[gr...@nmr.mgh.harvard.edu]
Sent: Thursday, March 12, 2015 10:29 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] Monte Carlo Simulation
Yes, that probably is the reason.
doug
On 3/12/15 4:31 PM, Wolthusen, Rick Peter Fritz wrote
to limit the results to the
subcortical regions of interest only?
Thanks,
Rick
From: Douglas N Greve [gr...@nmr.mgh.harvard.edu]
Sent: Monday, March 02, 2015 4:10 PM
To: Wolthusen, Rick Peter Fritz; Freesurfer@nmr.mgh.harvard.edu
Subject: Re: Monte Carlo
in bbregister.
But you only need that if you find a bad registration.
On 03/11/2015 05:30 PM, Wolthusen, Rick Peter Fritz wrote:
I checked registration before and it was fine. However, I'll go back and look
at the first value in the aslcal.reg.mincost file. What is the normal range?
Also, I don't
, you'll see the CBF maps for
different subjects. They should be more-or-less in alignment. Look for
ones that are way out of alignment or don't have all of the brain.
On 03/12/2015 02:35 PM, Wolthusen, Rick Peter Fritz wrote:
Well, I checked the proper match of ASL and anatomical scans again
. It is basically the mean
gray/white contrast across cortex passed through a sigmoid function to
make its range 0-1, 0 being best. You cannot necessarily generalize the
normal range for one modality to that of another.
On 03/12/2015 12:11 PM, Wolthusen, Rick Peter Fritz wrote:
Hi Doug et al.,
I indeed
concatenating several input files that are passed on the command line.
how were those created?
On 03/11/2015 03:54 PM, Wolthusen, Rick Peter Fritz wrote:
Sure. I simplified it and attached it again. Please let me know if this is
helpful!
From: freesurfer-boun
/11/2015 05:15 PM, Wolthusen, Rick Peter Fritz wrote:
Oh, I see what you mean. I accidentally sent you the within group analysis
script. I am attaching the first level analysis script now. I also labeled
the different steps to simplify the script a little bit
, 2015 3:22 PM
To: Freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] Monte Carlo Simulation
Something went very wrong with your first level analysis because the
final mask is pretty messed up. how did you create cbf.talairach.mgz ?
On 03/11/2015 03:13 PM, Wolthusen, Rick Peter Fritz wrote
, 2015 3:36 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] Monte Carlo Simulation
Sorry, I don't have time to deconstruct that script. Can you simplify it
for me?
On 03/11/2015 03:32 PM, Wolthusen, Rick Peter Fritz wrote:
This is the script I am using to create cbf.talaraich.mgz
Hi Doug et al.,
Here is the glmdir file you were requesting:
http://gate.nmr.mgh.harvard.edu/filedrop2/?p=1vzzxqva928
Thanks,
Rick
From: Wolthusen, Rick Peter Fritz
Sent: Tuesday, March 10, 2015 2:10 PM
To: Freesurfer@nmr.mgh.harvard.edu
Subject: RE
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