Dear FreeSurfer experts,
In regard to fsaverage, we are wondering whether it is recommended to use
the default fsaverage or if a new fsaverage should be created for the
individual dataset. If there are no recommendations, what are
the advantages and disadvantages?
Best regards,
Kasper Jessen
MD,
Dear. Freesurfer experts.
Hi.
i appreciate your help in advance!
I'm using freesurfer version 5.3.0.
I tried selxavg3-sess and got the error dimension mismatch between mask and
2th run.
Actually, the number of slices of the 1st run and the rest are different.
Is it the reason why I get this err
Hi developers,
Could you please help me out on this problem.
Should I upload the data?
Cheers,
Ed
Begin forwarded message:
From: Ed Gronenschild
mailto:ed.gronensch...@maastrichtuniversity.nl>>
Subject: System crash by extremely much generated output v6 beta
Date: 7 March 2016 12:57:57 CET
To:
20 GB is not a lot for a full macos install + data, how much room was
free before you ran recon-all?
What is the hardware? CPU, RAM etc.
hth
d
On Wed, Mar 9, 2016 at 12:09 PM, Gronenschild Ed (NP)
wrote:
> Hi developers,
>
> Could you please help me out on this problem.
> Should I upload the da
Hi Doug,
I copied the mri_segstats patch you provided to my freesurfer/bin location and
reran the pipeline. However, I'm getting the same issue. Autorecon2 seems
unable to create the ribbon.mgz file.
Do you have any other suggestions for fixing this error?
Also, can you explain what the ribbon
Dear. Freesurfer experts.
Hi.
I'm pretty sure that this error is due to the different number of slices in
different runs
I ran preproc-sess -s $SUBJECT -df sessdirfile -fsd bold_Retino -nosmmth
-per-run -force
Then I ran selxavg3-sess -s $SUBJECT -analysis retino -df sessdirfile
I thought p
Dear FreeSurfer experts,
We have a longitudinal study design with up to 5 time points. However, we
both want to do a baseline cross-sectional analysis and later a
longitudinal analysis. All subjects have been run through the longitudinal
pipeline (only the base was edited). We want to start analys
Hi Kasper,
short answer: yes.
long answer
1. yes
2. yes (you need to create a table in cross sectional format (no
fsid-base column) and the fsid needs to be the tp.long.base names for
baseline visit. the path should point to where these *.long.*
directories are located).
2. yes (fsaverage sh
We are looking for a highly motivated individual with PhD to join our team for
brain imaging genomics research. Current projects focus on studying the genetic
basis of the human brain and psychiatric disorders. The post holder will
analyze neuroimaging data and examine relationships among gene,
There was a post in 2015 from Richard Parker talking about using SPM brainmasks
instead of the Freesurfer ones. I would like to do this but in some cases I
have multiple T1s and I get the motioncor step to make a registered template.
What steps do I need to perform to get a brainmask from one of
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