Dear experts,
concerning my question regarding thresholding method of entorhinal and
perirhinal labels, I looked at
Augustinack JC et al, Predicting the location of human perirhinal cortex,
Brodmann's area 35, from MRI, Neuroimage 2013 Jan 1;64:32-42.
where I found the text:
For each label,
Hi Douglas,
Thank you for your help,
So I still can't convert my volumetric file to a surface file and I don't
know what I am doing wrong.
My nifti volumetric file looks like : 1. screenshot
As you said, i have first registered the volumetric file
using bbregister.
I have used this command lin
Hey all,
I'm running preproc-sess, and getting the following error:
...
Reading in mov rest/tmp.bbregister.28405/template.nii
Reading in ref .../mri/brainmask.mgz
Reading in and applying refmask .../mri/aparc+aseg.mgz
Cannot allocate memory
I checked, and the aparc+aseg.mgz file is ok (I can read
Hello,
I'm currently doing a resting state functional connectivity analysis. I have
two groups and my ultimate goal is to compare the resting state network of
group 1 to that of group 2.
What is the standard procedure for comparing resting state connectivity across
groups?
I've followed the d
Also, re-slicing already acquired data will introduce blurring into
the data you input to FreeSurfer, which may hurt reconstruction.
hth
d
On Wed, Mar 1, 2017 at 10:30 AM, Bruce Fischl
wrote:
> Hi Kristine
>
> no, it doesn't. Randy Buckner did a small study on this and found no
> detectable effe
Dear experts:
I have nifti file with 96 slices. I want to re-slice it to form nifti file with
200 slice. Are there any tools in Freesurfer that can help to achieve this?
Many thanks for any suggestion
John___
Freesurfer mailing list
Freesurfer@nmr.mgh.
Thanks. Z K
Best,
Paul
On Fri, Mar 3, 2017 at 12:14 PM, Z K wrote:
> Im looking into this now, but I think their might be a bug when using
> the -parallel flag on Mac platforms. I should have a fix shortly. I will
> let you know.
>
> On 03/03/2017 12:10 PM, miracle ozzoude wrote:
> > Thanks Anto
Im looking into this now, but I think their might be a bug when using
the -parallel flag on Mac platforms. I should have a fix shortly. I will
let you know.
On 03/03/2017 12:10 PM, miracle ozzoude wrote:
> Thanks Antonin. I also have different error when running another
> subject. Recon fails in
Dear all,
We've segmented some brain regions on orig.mgz using another program (this
custom segmentation is called our_segmentation.mgz). Is it possible to
transform this segmentation into the original native anatomical space using
the following command?
mri_label2vol --seg our_segmentation.mgz -
I could be wrong, but I dont think it has anything to do with the
installation location. Can you upload your subject folder so I can take
a look?
https://surfer.nmr.mgh.harvard.edu/fswiki/FtpFileExchange
On 03/03/2017 09:11 AM, Daniela wrote:
> I second the problem found in this thread:
>
>
Dear Dawn.
We have observed that the hippocampal volumes obtained from the subfield module
are ~10% smaller than those from the main recon-all stream - but, in any case,
very highly correlated.
I believe that the discrepancy is due to the smaller voxel size in the
analysis, and due to the fact t
Thanks Antonin,We had suspected as much. For those who might want to use NITRC-CE (FS v6.0 via their AWS service in the future), please note that our initial (and memory-insufficient) "instance" was "c3.large" . As you can see in the table below, we should have paid more attention to the guidance
Sorry, that appears to only work with 3D view. On 2D view you’ll have to use
Cmd + arrow keys to pan. I’ll fix it in future update.
> On Mar 3, 2017, at 9:58 AM, Ruopeng Wang wrote:
>
> If you have middle mouse button defined, use middle button. Otherwise, Shift
> + Left Button should do it.
>
If you have middle mouse button defined, use middle button. Otherwise, Shift +
Left Button should do it.
Best,
Ruopeng
> On Mar 3, 2017, at 9:51 AM, m...@marychin.org wrote:
>
> Hi,
>
> How do I pan on Freeview on a Mac please? Mine is an El Capitan, MacBook
> Pro (Early 2011).
>
> On
> htt
Hi,
How do I pan on Freeview on a Mac please? Mine is an El Capitan, MacBook
Pro (Early 2011).
On
https://surfer.nmr.mgh.harvard.edu/fswiki/FreeviewGuide/FreeviewGeneralUsage/FreeviewNavigation
it reads:
You can pan across the data, which is especially useful when zoomed in.
To do so while in
Hi Bronwyn,
I think years-between-scans should be years-from-baseline-scans . You may need
to compute that if what you have is really years between neighbouring scans.
1. Usually people use intercept and maybe years-from-baseline as random
effects. I would not include too many random effects,
Eugenio and Freesurfer team,
Many thanks for responding to these questions. My question relates to
hippocampal volume overestimation. I believe that a European team recently
evaluated the performance of hippocampus segmentation using different automated
segmentation methods including Freesur
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