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Great, just what I was looking for!
Thanks Douglas,
Jordi
On Wed, Nov 27, 2019, 19:47 Greve, Douglas N.,Ph.D.
wrote:
> It might work if you
> mkdir -p FOO/mri
> cp yourwm.mgz FOO/mri/wm.mgz
> cp inputdata.mgz FOO/mri/orig/001.mgz
> then run
External Email - Use CautionSorry i didn't make it clear. I mean the volume( nii file) converted by label does not match T1.___
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Hi Kersten,
No problem at al and thank you for your reply.
While running my correction for multiple comparisons I store the df associated
with each contrast vector using the following:
[~,~,dflh] = find(F_lhstats.df(2,:));
[~,~,dfrh] =
It might work if you
mkdir -p FOO/mri
cp yourwm.mgz FOO/mri/wm.mgz
cp inputdata.mgz FOO/mri/orig/001.mgz
then run recon-all -s FOO -all
On 11/27/2019 12:39 PM, Jordi Huguet wrote:
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Hi Bruce,
Many thanks for your reply.
I understand from your answer that it
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Hi Bruce,
Many thanks for your reply.
I understand from your answer that it could be done as follows (I am not an
expert in FreeSurfer directives):
a) run full FreeSurfer pipeline
recon-all -s FOO
b) insert pre-existing WM segmentation as wm.mgz
yes, in fact, what you have done is the preferred method. Just run recon-all
with -qcache instead of -all (or any other directive). Also note that qdec is
not very flexible, so you may want to use the command line stream.
On 11/27/2019 10:21 AM, Marisa Cathryn Ross wrote:
External
I'm not sure what the problem is. You say that they match when you load the T1
and the sc. If so, what is the problem?
On 11/27/2019 7:57 AM, zorothustra wrote:
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Hello Freesurfer Developers,
I'm trying to get superior colliculus' ROI mannually by freeview.
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Dear all,
I have a LUT, a gca file for subcortical segmentation and two gcs files for
parcellation available. How can I get SUVRs for both the cortical and
subcortical structures?
I tried using xcerebralseg to create a individual segmentation to
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Hello,
We have a large set of images that have been processed in FS 6.0 (on linux)
with manual edits for all stages of recon-all. We would like to utilize the
QDEC package to do group analyses, but did not have the -qcache flag in our
pipeline when
Hi Dustin,
The freeview binaries that we ship are the same binaries installed on the
cluster. You should try specifying the number of threads available to openmp by
setting the OMP_NUM_THREADS env variable to something like 4 or 8 on your local
machine to see if this makes a difference.
Best,
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Hi Bronwyn, Doug,
sorry - I missed the other mail from two weeks ago (and have been absent for a
few days), but I'm able to take a look now.
You mention that your goal is to calculate effect sizes. Could you briefly let
us know how you are
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Hello Freesurfer Developers,
I'm trying to get superior colliculus' ROI mannually by freeview. I load
"orig.mgz" as volumes and set the "orig.mgz" as the ROI's template then draw
the ROI and save it as a label file. After that I use "mri_label2vol
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