Fantastic, thank you!
On 30 October 2017 at 10:03, Bruce Fischl
wrote:
> thanks Mel!
> Bruce
>
> On Mon, 30 Oct 2017, Melanie Ganz wrote:
>
>
>> Hi,
>>
>>
>>
>> So here’s the Wiki page for the human Allen brain data recons:
>> https://surfer.nmr.mgh.harvard.edu/fswiki/AllenBrainAtlas
>>
>> Right
Hi,
Was the following issue ever solved?
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help!
https://mail.nmr.mgh.harvard.edu/pipermail/freesurfer/2013-July/031482.html
Best wishes,
Mike
On 19 October 2017 at 15:05, Seán Froudist Walsh wrote:
> Hi,
>
> Was the following issue ever solved?
>
>
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Freesurfer mai
Hey,
Not sure if this could save someone else the trouble. The LME fitting
software wasn't working for me since I updated Matlab, which has now
switched from matlabpool to parpool for parallel processing, so I switched
the call in the scripts to parpool, which seems to be working fine.
Please fin
llowing way (just for
> organizational purposes):
> X = [Intercept Age(at scan) Group Group*Age Gender] so the
> time-variying covariates appear first.
>
> You don't need to re-do the design matrix to test the effect of age within
> a group (group-specific slope different fr
Dear Jorge and FreeSurfers,
Would you mind having a look at my set-up and advising on whether it is
correct or needs changing?
I have participants with one or two scans, who are divided into two groups.
I'm interested in the longitudinal effects of aging, and the difference in
the effect of age o
the nonzero elements of my BinaryMask.
>From a bit of Googling it seems that 1-based means that counting starts
from 1, which seems to be the case here.
Is there a mistake I'm not seeing?
Thanks,
Seán
On 4 December 2013 19:17, Seán Froudist Walsh wrote:
> Muchas gracias tío, er
e analysis.
> *Best*
> *-Jorge*
>
>
> El Miércoles 4 de diciembre de 2013 13:43, Seán Froudist Walsh <
> froud...@tcd.ie> escribió:
>
> Hi Jorge,
>
> Thanks a lot for your reply. I will try out everything you have said. Yes,
> you're right. I've f
your **mask** and data matrix **Y**?*
>
> *Best*
> *-Jorge*
>
>
> El Miércoles 4 de diciembre de 2013 5:04, Seán Froudist Walsh <
> froud...@tcd.ie> escribió:
>
> Dear Jorge and FreeSurfers,
>
> I have just been running lme_mass_fit_vw for 6 hours, and I h
Dear Jorge and FreeSurfers,
I have just been running lme_mass_fit_vw for 6 hours, and I have seen many
thousands of messages like the following:
"Location 337813: Convergence at iteration 4. Initial and final
likelihoods: 607.8828, 611.1052.
Location 337812: Convergence at iteration 4. Initial an
Best*
> *-Jorge*
>
>
> --
> *De:* Seán Froudist Walsh
> *Para:* freesurfer@nmr.mgh.harvard.edu
> *Enviado:* Lunes 23 de septiembre de 2013 13:54
> *Asunto:* [Freesurfer] LME toolbox for VBM-style data?
>
> Dear FreeSurfers,
>
> I was
Dear FreeSurfers,
I was wondering if anyone had tried to use the MATLAB LME toolbox that you
kindly developed for volume based VBM-style data? Either way would you be
able to impart some initial advice as to considerations that should be made
etc?
Best wishes and many thanks,
Sean
__
Dear experts,
I would like to ask for help in explaining an unexpected difference in
volume in subcortical structures between orig.mgz space and rawavg.mgz
space scans.
I used FreeSurfer (v5.1, Mac 10.7.5) on a group of subjects in order to
extract subcortical segmentation volumes. I then changed
Sent on behalf of Marcelo L. Berthier and Matthew A. Lambon Ralph
Dear colleagues
As host editors of an innovative open access journal, Frontiers in
Human Neuroscience, we are currently organizing a Special Topic
centered around “Dissecting the function of networks underpinning
language repetitio
tp2 to tp3)?
Also, when viewing the spc of tp1, tp2 and tp3 together are we just looking
at the change between timepoints 1 and 3?
Many thanks for the help,
All the best,
Seán
On 27 June 2011 11:50, Seán Froudist Walsh wrote:
> Hi Martin,
>
> That worked! Thanks a lot,
; On Thu, 2011-06-23 at 09:12 -0700, Seán Froudist Walsh wrote:
> > Dear FreeSurfers,
> >
> > I am looking for a little help comparing longitudinal data. I have
> > three timepoints on each patient and have been able to get individual
> > spc-thickness maps using t
Dear FreeSurfers,
I am looking for a little help comparing longitudinal data. I have three
timepoints on each patient and have been able to get individual
spc-thickness maps using the long_mris_slopes command where my table
included all three time points. I would however like to compare different
ible to include new
> tracts in the atlas but someone has to do the labeling on the same or a
> similar set of subjects.
>
> a.y
>
>
> On Wed, 15 Jun 2011, Seán Froudist Walsh wrote:
>
> Hi FreeSurfing Gurus,
>>
>> I would like to add some new tracts to the Tracul
Hi FreeSurfing Gurus,
I would like to add some new tracts to the Tracula pipeline using my own
regions of interest. What would be the best way to do this?
All the best and many thanks in advance,
Seán
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Hi Balaji,
fslswapdim (a command line program which comes as part of fsl) should solve
your orientation problems.
If you have fsl installed (which you should do!) then typing
fslswapdim input_volume_name -x output_volume_name
into the terminal should swap RAS to LAS and vice versa.
Or you can jus
Dear FreeSurfer gurus,
I have T1 scans of a patient at three different time-points (one run at each
time-point). The cortical reconstructions of the first and third time-points
seem to have worked reasonably well, but the reconstruction of the second
time-point was a disaster. A massive part of th
pub/dist/freesurfer/4.5.0/
>
> n.
>
>
> On Fri, 2011-03-11 at 14:13 +0100, Seán Froudist Walsh wrote:
> >
> > Hi Freesurfer group,
> >
> > I would like to know if it is possible for me to download FreeSurfer
> > on my Intel based Mac with OSX Tiger (10.4.
Hi Freesurfer group,
I would like to know if it is possible for me to download FreeSurfer on my
Intel based Mac with OSX Tiger (10.4.11)? I have been unable to update to
Leopard/Snow Leopard due to a problem with the super-drive so that is not
currently an option for me.
Many thanks in advance
A
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