Dear Doug,
thanks for reply.
But isn't it statistically the same: compare e.g. the thickness of morbid group 1 with the controll group via Qdec respectively compare both groups via contrasts (e.g. 1 0 0 -1) in mri_glmfit?
For me the only advantage of mri_glmfit is to controll for more var
wow, we haven't seen that happen. Does the recon-all.log from the
parallel machine have any clues as to why it is empy?
On Mon, 26 Oct
2015, Anna I. Garcia Diaz wrote:
Hi Bruce,
Thanks for the reply. The talairach.xfm file generated by the palarellizing
machine is empty; it looks as follows:
Hi Jason
do you have matlab installed? If so, you need to setup your environment
so that it is in your path. This doesn't really have anything to do with
FreeSurfer - you need to be able to type "matlab" from the command line
and have it find the binary
cheers
Bruce
On Wed, 28 Oct 2015, Jaso
Hi Bruce,
Thanks so much for your response. I can only start Matlab from the terminal
when I use the following command within the Matlab applications folder:
./matlab
Am I to understand that the matlab command must be globally accessible? If
so, how might I achieve that?
Thanks so much,
Jason
Hi Jason
you need to talk to a local sysadmin, but basically you need to add the
path to matlab to your path environment variable. The syntax for this
depends on the shell you are using, but for example in csh/tcsh it would
be something like (in your .cshrc file in your home directory)
set
To give yourself the greatest likelihood of success building freesurfer,
please follow the directions in this page specifically noting section 3:
http://surfer.nmr.mgh.harvard.edu/fswiki/freesurfer_linux_developers_page
If you wish to use your own customized version of the minc tools, I
woul
Break up the annot into separate labels then recombine the ones you want
into a new annotation. Use mri_annotation2label for the first step then
mris_label2annot for the second.
On 10/27/2015 02:35 PM, Mihaela Stefan wrote:
> Hello Freesurfers,
>
> I would like to be able to display just a few
Thanks!
Mihaela
On Wed, Oct 28, 2015 at 1:29 PM, Douglas N Greve
wrote:
> Break up the annot into separate labels then recombine the ones you want
> into a new annotation. Use mri_annotation2label for the first step then
> mris_label2annot for the second.
>
>
> On 10/27/2015 02:35 PM, Mihaela St
Thanks!!
> On Oct 27, 2015, at 1:18 PM, Douglas Greve wrote:
>
>
>
> On 10/27/15 1:09 PM, Morenikeji Adebayo wrote:
>> Hi Doug,
>>
>> Thanks for the help! So, you’re saying that:
>>
>> By specifying a volume file (ie: aparc.a2009s+aseg.mgz) when using
>> mri_cor2label, I’ve created volume
I think this one thread might have disappeared (if not, I apologize for my
impatience).
Heidi
On 10/27/15, 5:16 PM, "Jacobs H (NP)"
wrote:
>I just checked again in freeview and indeed they have the same index (e.g.
>CA1 has value 206 for left and also for right).
>
>On 10/27/15, 5:01 PM, "Dougla
Hello Freesurfer Experts,
I am trying to reproduce the values in sig.mgh using matlab, just to
confirm that I know what is going on. My numbers do not match exactly, and
I am hoping someone can explain my error, or point me in the right
direction.
With Qdec, I built a model with one discrete fac
Dear All,
I ran recon-all and generated a brain.mgz and say, lh.pial.
I converted brain.mgz to brain.nii, imported the latter to matlab/spm and
realigned it to rbrain.nii, generating a transform matrix
M=rbrain.reorient.mat.
if MM is the header for rbrain.nii, the header O for the original brain.n
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