what do you mean by separate? Extract into a separate volume? If so, you
can use mri_extract_labels or mri_binarize with the --match flag.
cheers
Bruce
On Mon, 2
Oct 2017, Vidhu Agrawal wrote:
> how to separate any sub cortical region in freesurfer ?
>
>
___
Perfect! I looked at the norm.mgz and each of the subcortical regions was
perfectly represented and matched the segmentation.
What did you mean by "don't loom at the aseg on top of the brain mask?"
I thought it was appropriate, because I am doing pial corrections and the
online tutorial said I n
the brainmask is essentially a binary mask. YOu should use the brain.mgz
not the brainmask for cortical stuff. For subcortical segmentations you
should overlay the norm as it is the input to the aseg. The brain volume
will have these borders eroded as it is only used for cortical surfaces not
On 10/01/2017 05:08 PM, std...@virgilio.it wrote:
> Hi,
> on 4 groups, 1 covariate (4GV1)
>
> I run mri_glmfit using the following .mtx
>
> C1) gr1-gr2_intercept 1 -1 0 0 0 0 0 0
> C2 )gr1-gr2_slope 0 0 0 0 1 -1 0 0
> C3) gr1-gr3_intercept 1 0 -1 0 0 0 0 0
> C4) gr1-gr3_slope 0 0 0 0 1 0 -1 0
> C
The pre-computed tables only go up to fwhm=30. I know that you only used
fwhm=15, but there is inherent smoothness in the data that causes the
actual fwhm to be larger, especially for surface area and volume. I
highly recommend that you use permutation when analyzing surface area. I
have a new
Hi Seung-Gul, we are moving away from qdec, at least for now. Can you
try re-doing your analysis using the "command line" stream? Ie, create
an FSGD file, run mris_preproc, mri_surf2surf, then mri_glmfit.
doug
On 10/01/2017 08:25 PM, Seung-Gul Kang (강승걸) wrote:
> Dear Freesurfer Experts,
>
> L
FYI
Forwarded Message
Subject:Call for OHBM 2018 Award Nominations
Date: Mon, 02 Oct 2017 09:56:32 -0500
From: i...@humanbrainmapping.org
Reply-To: i...@humanbrainmapping.org
To: gr...@nmr.mgh.harvard.edu
*Call for OHBM 2018 Award Nominations*
Dear Dou
If you have two binary masks, you can use mri_mask to compute the voxels
that overlap in both
On 09/27/2017 01:48 PM, Yagmur Ozdemir 19 wrote:
> Hello Dr. Greve,
>
> Sorry for the late response; I thought my initial description was enough.
>
> As far as I understand, the fMRI version of this cod
Hi,
I'm trying to build freesurfer on centos7 and I'm pretty sure that this
failure is due to a missing build dependency. Can someone please help me
determine what I'm missing?
Making all in lta_convert
make[2]: Entering directory `/builddir/build/BUILD/freesurfer-6.0.0/lta_convert'
make[2]: Leav
Dear Experts,
How to figure out if a cortical parcellation is Considered as a part of
gray matter or white matter ?
Thank you!
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