Dear free surfer community,
Silly question here. I note the default "subjects_dir" in freesurfer
contains a bunch of directories and files.
If I set the environment so that my "subjects_dir" is not the default
location, do I need to move any of the files in the original location to
the new one?
Dear FreeSurfer experts,
I ran my group analysis using mri_glmfit and found a number of significant
clusters showing cortical thickness differences between 2 groups. I used
tksurfer to visualize the results and used FDR to correct for multiple
comparisons.
My question is about how do I correctly
Hello Elijah,
I want to extract this values like you did. How do I use the script doug
recommended?
Thanks
Paul
On Wed, Jun 21, 2017 at 11:47 AM, Elijah Mak
wrote:
> Thanks Doug! It works!
>
> Best Wishes,
> Elijah
>
> On 21 June 2017 at 16:09:29, Douglas N Greve (gr...@nmr.mgh.harvard.edu)
>
Hi,
I have a question about mri_glmfit. As an input, you give e.g. the stacked
thickness data from all subjects, smoothed with a certain fwhm. But then as an
output file, it gives an fwhm.dat file, which, at least in my case, contains
another smoothing level.
I noticed this because I ran mri_g
Hi List,
I am currently doing a group analysis of 26 subjects, one of which has missing
fMRI data where the signal cuts off through parts of the occipital and temporal
lobes. I was wondering if freesurfer has any way of dealing with this, such as
multiple imputation, or other methods of fillin
Great, thank you!
Best,
Corinna
On Thu, Jun 29, 2017 at 12:09 AM, Thomas Yeo wrote:
> Hi Corinna,
>
> You can download here: https://www.dropbox.com/s/yj1gbpmpgho7wtm/Yeo_
> JNeurophysiol11_SplitLabels.zip?dl=0
>
> Regards,
> Thomas
>
>
> On Thu, Jun 29, 2017 at 5:45 AM, Corinna Bauer
> wrote
Hi,
I'm a new user of qdec and I'm trying to run a cortical thickness analysis
in qdec between Schizophrenic patients and healthy controls.
I have run "recon-all -i" and "recon-all -s -qcache" on my data
and it says that this has run successfully without any errors.
But when I hit analyze on the
Hi Jon
CT doesn't usually provide any gray/white contrast, so I don't think it
can work. The dicom issue is a separate one. We should be able to read
most dicoms, but of course this is the issue with an "evolving standard".
cheers
Bruce
On
Wed, 28 Jun 2017, John Anderson wrote:
Dear Frees
sure, you can use whatever format we support - we will recognize it by
the extension (e.g. .nii or .nii.gz).
cheers
Bruce
On Tue, 27 Jun 2017, Michelle
VanTieghem wrote:
Hi Bruce,
The -gcut does not appear to make any difference on our skull stripping. I
also saw that you can change flags f