FreeSurfer List,
I am attempting to run an analyses on 2051 participants. However, when I reach
the mri_glmfit stage I receive the following error.
ERROR: gdfReadV1: the number of inputs in FSGD file exceeds the maximum allowed
2000
Is there a work around for this?
Thank you in advance for
Hi Cassie
those are the result of low bandwidth and susceptibility artifacts.
There's not much that can be done about them post-hoc - the images don't
contain enough information to reconstruct accurate models in those
regions. In general we recommend higher bandwidth sequences for this
reason
Dear experts,
Could you indicate me how to specify a contrast vector with fractional
values ? I tried the below formats without success in the .mtx file:
[0 0 0 0 0 0 1 1 1 -1 -1 -1]/3
|0 0 0 0 0 0 1 1 1 -1 -1 -1|/3
0 0 0 0 0 0 1/3 1/3 1/3 -1/3 -1/3 -1/3
Thank in advance for helping !
Best re
Dear FreeSurer's experts,
I used group analysis based on GLM to compute significative surface maps of
different characteristics : thickness, CBF,...
Now I've got these maps I would like to visualize overlaps between two
different maps and compute the overlap ratio.
How could I succeed these two
They are MNI305 coordinates. When we mention "Talairach" coordinates, it
refers to mni305 coordinates that have been transformed according to
some work done by Matthew Brett. It used to be documented here
http://www.mrc-cbu.cam.ac.uk/Imaging/mnispace.html, but it is not in
that location anymor
you'll need to use .33
On 03/16/2015 11:09 AM, Matthieu Vanhoutte wrote:
> Dear experts,
>
> Could you indicate me how to specify a contrast vector with fractional
> values ? I tried the below formats without success in the .mtx file:
>
> [0 0 0 0 0 0 1 1 1 -1 -1 -1]/3
>
> |0 0 0 0 0 0 1 1 1
This is hard coded unfortunately. I've bumped it up to 20k in the most
recent version. I've put a linux version here
ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/mri_glmfit
On 03/16/2015 06:38 AM, Avram Holmes wrote:
> FreeSurfer List,
>
> I am attempting to run an analyses o
For visualizing the overlap, I would probably create a segmentation in
which each vertex is either 1 (present in thickness), 2 (present in
CBF), or 3 present in both. You can do this in matlab or with a
combination of mri_binarize and fscalc. You can then create an
annotation from the seg with
Hi all,
I'm working with BrainVoyager and Freesurfer. I have some Talairach
coordinates from BV for a functional ROI, and I'm trying to see if I can
use these coordinates in Freesurfer to draw the same ROI on the structural
slices. Is this possible?
Alternatively, is it possible to draw a sphere
Thank you Douglas.
Matthieu Vanhoutte, MSc
Research Engineer - Neuroradiology Department
Regional University Hospital, Lille, France
Le 16 mars 2015 18:17, "Douglas N Greve" a
écrit :
> you'll need to use .33
>
> On 03/16/2015 11:09 AM, Matthieu Vanhoutte wrote:
> > Dear experts,
> >
> > Cou
Thank you Douglas I will try this.
Matthieu Vanhoutte, MSc
Research Engineer - Neuroradiology Department
Regional University Hospital, Lille, France
Le 16 mars 2015 19:13, "Douglas N Greve" a
écrit :
>
> For visualizing the overlap, I would probably create a segmentation in
> which each vertex i
Thank you so much, Zeke! That helped a lot.
Best,
Emad
> On Mar 10, 2015, at 11:43 PM, zkauf...@nmr.mgh.harvard.edu wrote:
>
> Hello Emad,
>
> The download page states that OSX versions of freesurfer require the user
> to download and install XQuartz onto their machine. I have updated the
> dow
Dear Freesurfer users,
Does anybody knows if the steps after the segmentation have some impact in
subcortical structures volume? If it does, how can I have this measurements
back even if I had already run recon-all?
best,
Maurício Anés
___
Freesurfer ma
Hi, Bruce.
I tried several thresholds in some subjects and it seems to work reallh well.
Thanks for the help!
However, I would like to ask whether I should determine the expert values based
on the raw image (001.mgz) or the normalized image (T1.mgz)? I am asking this
because I believe the normal
Hi all,
I’m new to both freesurfer and fMRI, and after reading some related posts on
the forum I still can't complete this task so would appreciate any help or
suggestions.
I’m trying to import the eccentricity and polar maps from a freesurfer
retinotopy analysis into matlab. My goal is to hav
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