Hi doug,
I read your instructions on how to make an average subject, it looks quite
streamlined.
But I still have two questions about the procedure.
1. During the processing, every subject's surface need to register to a
common target, and where the target comes from, it is an existed template in
Hi all,
My design is very simple: 1-group,1-variable 2-nuisance (age,gender).
I just want to see the correlation between Cth and my variable.
I obtain one cluster after mc-correction. (using freesurfer5)
There is any way to get the intercept,slope or r-pearson (in average) values of
this particu
Hello,
I have uploaded a subject via Martinos Center File Drop website. Have you
had a chance to take a look?
Thank you,
Victor Yee
On Wed, May 11, 2011 at 9:53 AM, Bruce Fischl wrote:
> sure, upload a subject and we'll take a look
>
> On Wed, 11 May 2011, Victor Yee wrote:
>
> Hello,
>>
>> W
Hi Bruce, returning back to this. I tried the same command on the tutorial
data set (bert):
tksurfer bert rh inflated
and I did not get the error about rh.sphere.reg surface not matching
rh.inflated that I got with my data, but I still have the same problem with
the tutorial data (bert). I see on
mri_convert -iks 1 --conform ga_2010.nii 001.mgz
will create an image where the z direction is 1mm. but the orientation
will still be wrong, since it was missing from the header (or
incorrect). orient_mri can be used to rotate it, but one cannot know
whether left or right is correct.
n.
On Mo
Dear Dr. Fischl,
We have been following the steps you have laid out on the listserv
(http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg17601.html) to
make an average subject. However, we are not able to proceed with the
mris_preproc step. It requires an output file and the hemisphe
No, that sounds like something went wrong. How does the calcarine label
look in the parcellation?
On Tue, 17 May 2011, Ritobrato Datta wrote:
> Hello All,
>
> I have estimated V1 using Hinds and Fischl method for some subjects scanned
> on two different days. I've been going through the V1 surfa
For subcortical structures, you could consider using a covariate measure
that itself includes subcortical gray matter. Not sure if the latest FS
version has such a measure automatically constructed or not. In the
past, we have used "whole brain volume" as a covariate for analysis of
both cortica
Fernanda Palhano wrote:
> Hello,
>
> I have two questions about volumetric analysis:
> First: Are the volume measures in the files aseg.stats or
> ?h.aparc.stats (Gray Matter Volume) already normalized by ICV? Or
> should I divide
> all the structure volumes which I want to compare between subj
Hello All,
I have estimated V1 using Hinds and Fischl method for some subjects scanned on
two different days. I've been going through the V1 surface area data for these.
One thing that concerns me is that is seems that very different V1 sizes are
reported for the same subject when scanned on di
Not happening anymore, thanks!
> Hi Chinduri, is this still happening? I can't replicate.
>
> doug
>
> Chindhuri Selvadurai wrote:
>> Hi all,
>>
>> We are trying to run individual analyses on several subjects, and we
>> keep
>> getting a 'Segmentation Fault.' We have run other subjects with the
>
Hi Fernanda,
The choice between ICV vs a measure of total "brain volume" or total
cortical gray matter volume depends on whether you want to control for
potential overall brain atrophy. Using ICV will control for overall
"head size", but not for potential overall brain atrophy (e.g., with
age, or
Yes, the data is currently missing as we have to rerun all tutorials with the
new FS version 5.1 before release. Will be up again in a week .
Best Martin
On May 17, 2011, at 5:32 AM, Knut J Bjuland wrote:
> Hi
>
> I am trying to follow the Longitudinal Processing - Tutorial but it
> appear t
Hi,
Nothing in the stats is normalized. It makes sense to normalize volumes by ICV
when comparing across subjects (as that is assumed to stay constant while GM
volume of course changes ).
Not sure if aseg...table grabs it, it should, maybe Krish knows.
Best Martin
On May 17, 2011, at 8:19 AM,
Hello,
I have two questions about volumetric analysis:
First: Are the volume measures in the files aseg.stats or ?h.aparc.stats
(Gray Matter Volume) already normalized by ICV? Or should I divide
all the structure volumes which I want to compare between subjects by the
ICV of each subject?
Second:
Hi
I am trying to follow the Longitudinal Processing - Tutorial but it
appear that the tutorial data is missing at the server? Has the file
been rename or moved to another place?
Knut J Bjuland
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