Dear All,
After running recon-all I noticed wmparc.mgz only contains wm volume and there
is no ctx volume and subcortical volumes.
Recon-all finished without any error.
Thanks
Ayaz
The information contained in this message and any attachments is intended only
for the use of the individual or
AFNI program FSread_annot is exactly what you are looking for.
On 6/6/11 2:27 PM, Allison R. Kaup wrote:
> Hi all,
>
> I have created a DLPFC label in Freesurfer, and am now trying to
> figure out how to visualize that ROI in SUMA.We have already
> successfully converted the aparc+aseg to SUMA
Hi all,
I have created a DLPFC label in Freesurfer, and am now trying to
figure out how to visualize that ROI in SUMA.We have already
successfully converted the aparc+aseg to SUMA (using
@SUMA_Make_Spec_FS). I am wondering if a similar process can be used
on this label file. Or, if there i
can i get an update on the eta for the tracula associated tutorial data
sets
greg
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wow, that's really, really old. I don't know where that atlas is, or
whether it would work with our current tools. Why don't you try option 1
and see how the optimal synthesis works?
On Mon, 6 Jun 2011, Auer, Tibor MD. Ph.D.
wrote:
I am following the steps described here:
http://surfer.nmr.
I am following the steps described here:
http://surfer.nmr.mgh.harvard.edu/fswiki/MEF, Scheme #2 (processing in the
multi-spectral space), Step 5:
"We also built a specific atlas for MEF data, which has exactly two channels
(one for flash30, and one for flash5). The atlas is stored in
FLASH_atlas.g
I don't think we ever created a MEF atlas, but did do one for single echo
FLASH. We don't have one we distribute as we don't use it internally and
haven't assessed it for accuracy/reliability etc... for years. We could try
to dig it up I guess, but we don't really support it at the moment.
ch
Dear Freesurferers,
I am trying to process multi-echo FLASH (MEF) images with FS. I have read in
FSWiki, that the FLASH_atlas.gca was built precisely for MEF data acquired
with FA=5 and FA=30. However, when I have looked after FLASH_atlas.gca in
the FS installation, I have found none.
Is it p
Hi Anthony
yes, we are working on this, but nothing is available at the moment.
cheers
Bruce
On Mon,
6 Jun 2011, Anthony Dick wrote:
> I didn't get a response the last post, so I'm going to try one more time!
>
> Hello all,
>
> We are looking to develop a cerebellum atlas training set based on
I didn't get a response the last post, so I'm going to try one more time!
Hello all,
We are looking to develop a cerebellum atlas training set based on the
Schmahmann et al (2000) parcellation so we can automatically segment the
cerebellum based on this atlas. Does this exist already? I know Makr
Dear Freesufer Users:
I wonder if the Talairach transformation engine was modified on version 5.1 or
not, since I
got an error message that didn't happen with version 5.0 on the same subject
when running recon-all:
"ERROR: talairach_afd: Talairach Transform: transforms/talairach.xfm
***FAILED
The Hospital of the University of Munich, Germany, is one of the largest and
most competitive university hospitals in Germany and Europe. 45 specialized
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Paola Valsasina wrote:
>
> Dear FS list,
>
>
>
> I have a couple of questions about QDEC toolbox.
>
> 1) If I perform a multiple regression model and I obtain a significant
> cluster of correlation, is it possible to extract the corresponding
> regression coefficient, in order to report the s
Hi all,
I recently downloaded and installed freesurfer for a Mac PowerPC. I tried
running recon-all on my data and an error message came up saying command
not found for talairach_avi and many other commands. I looked in my
/Applications/freesurfer/bin directory and that file wasn't there. All
t
Dear Khoa and Bruce,
thanks for replying so fast. The wm.mgz does not look correct either.
I have uploaded the subject using the second option.
Thanks again,
Irene
Le lundi 06 juin 2011 à 07:46 -0400, Khoa Nguyen a écrit :
> Hi Irene,
>
> Is the wm segmentation correct in the wm.mgz? If you wa
Hmmm, that does look strange. What does the wm.mgz look like there?
On Jun 6, 2011, at 4:12 AM, Irene Altarelli wrote:
> Dear Freesurfers,
>
> we are processing a dataset of children through recon-all, applying
> manual corrections when needed.
>
> For one subject, after manual correction a
Hi Irene,
Is the wm segmentation correct in the wm.mgz? If you want, you can upload
the subject and I can take a look.
You can try using this website
http://surfer.nmr.mgh.harvard.edu/fswiki/FtpFileExchange
If that doesn't work, try this one
https://www.nmr.mgh.harvard.edu/facility/filedrop/ind
Dear FS list,
I have a couple of questions about QDEC toolbox.
1) If I perform a multiple regression model and I obtain a significant
cluster of correlation, is it possible to extract the corresponding
regression coefficient, in order to report the strength of this correlation
at that point?
Dear Freesurfers,
we are processing a dataset of children through recon-all, applying
manual corrections when needed.
For one subject, after manual correction and running autorecon2-cp, we
observe errors in wm segmentation, bilaterally, with portions of gm
included in wm - as can be seen in the
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