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OK, give it another try.
- R.
I have the same issue for the following command:wget
ftp://surfer.nmr.mgh.harvard.edu/pub/data/fsfast-tutorial.subjects.tar.gzIf you
could add that file too, that would be great.RamiOn Mon, Sep 9, 2019 at 4:04 PM
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Dear all,
How can i create .annot files for both left and right hemisphere from nifti
atlases http://www.gin.cnrs.fr/en/tools/aal/
are there any specific guidelines or commands for surface based
parcellation ?
Thanks
Vasudev
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Hey Rob,
I have the same issue for the following command:
wget ftp://surfer.nmr.mgh.harvard.edu/pub/data/fsfast-tutorial.subjects.tar.gz
If you could add that file too, that would be great.
Rami
On Mon, Sep 9, 2019 at 4:04 PM fsbuild wrote:
>
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Thanks, it worked.
Cheers,
Rami
On Mon, Sep 9, 2019, 16:04 fsbuild wrote:
> External Email - Use Caution
>
> There should be a file there now, so please try it again.
>
> - rob
>
> On Sep 9, 2019, at 14:26, Rami Hamati wrote:
>
>
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There should be a file there now, so please try it again.
- rob
On Sep 9, 2019, at 14:26, Rami Hamati rhama...@uottawa.ca
wrote:External Email - Use
CautionHello there,When
attempting to get the analysed functional data using the below command:wget
It is voodoo to do the same test that you used to generate the cluster
(or have a graph that implies such a test). If you want to do a post-hoc
test, that is totally fair. Eg, if you do an unsigned test between the
two groups, you could then go back and do a signed test on the extraction.
On
You have to rerun from the beginning. (sorry)
On 9/9/19 3:12 PM, Aaron Tanenbaum wrote:
>
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>
> I noticed that you guys released a fix to improve the -hires option.
> I have been processing some of our data using the hires flag. if i use
> this fix do i
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I noticed that you guys released a fix to improve the -hires option. I
have been processing some of our data using the hires flag. if i use this
fix do i need to run recon-all from the beginning or can I run over the old
folders?
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Hello there,
When attempting to get the analysed functional data using the below command:
wget ftp://surfer.nmr.mgh.harvard.edu/pub/data/fsfast-functional.tar.gz
I get the following OUTPUT error:
--2019-09-09 14:21:20--
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Hi Douglas,
That's good to know its still a form of voodoo correlation. If researchers
wanted to avoid this, when looking for an interaction effect in a DODS
model with a continuous variable yet still wanted to know the direction of
the relationships
Hi Freesurfer experts
I have a question about designing an event related task. We are designing a
task for fear conditioning. Each stimuli presentation lasts 4 seconds. My
question is if we set the TR to 2 (which is a multiply of 4), will it make the
paradigm to have more power in signal
I think palm itself requires mgh or mgz files. I can't remember why we don't
convert it. You can run mri_glmfit with --mgz or --mgh (or just without
--nii.gz) and it should work.
On 9/9/2019 9:24 AM, Barbour, Tracy,M.D. wrote:
Hello Freesurfer community!
I am trying to run fspalm on surface
Right, the ocn.dat files have data that is uncorrected in that sense and might
need to nuisance factors removed before plotting. There is a design matrix in
there (Xg.dat). You can load that into matlab along with the ocn.dat, compute
beta = inv(X'*X)*(X'*ocn) to get the betas. You can then
Hello Freesurfer community!
I am trying to run fspalm on surface based data. I have installed PALM, fspalm,
mri_surfcluster, and mri_volcluster.
This is my fspalm command:
fspalm --glmdir TEPSC.glmdir --cft 1.3 --twotail --name palm-twotail-1.3
--iters 1000 --2spaces --cwp .05
When I run the
for the continuous curvature you can just cite the FreeSurfer paper, or
recon1/2). For the discrete curvature I think Rudolph Pienaar
published something on it. Some of the curvature indices are from David Van
Essen's papers, and the volume/area calculation is Anderson M. Winkler's
paper
Hi Shahrazd
can you try:
chmod -R a+rx $FREESURFER_HOME/bin
and see if that fixes your problem?
Bruce
On Mon, 9 Sep 2019, shahrzad kharabian wrote:
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Hi,
I have already run recon-all with default options on a large set of
T1-weighted images,
Hi Jiun-Wei
have you looked at the ?h.defect_labels overlaid on the inflated.nofix
and orig.nofix surfaces? That will tell you where the defect is that is
causing you trouble. If you have lesions they may be the source of the
issue. If you can't sort it out you can tar and gzip the entire
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Hi you two,
thank you very much for your quick reply! Just two short followup questions:
@Bruce: Is this published in any paper or documentation so I can cite it?
@Doug: Has this method been implemented with the last release of FS in 6.0.0 or
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Hi, I have already run recon-all with default options on a large set of
T1-weighted images, using Freesurfer v 6.0. Now we want to extract the
hippocmpal subfields from these already processed images. Apparently our
installation was missing Matlab
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Dear freesurfer experts,
When executing recon-all in two subjects with brain lesions, the recon-all
process stopped at CORRECTING DEFECT 13 (vertices=49319, convex hull=12973,
v0=65403) and
CORRECTING DEFECT 6 (vertices=23529, convex hull=6740,
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