I think i'm misunderstanding your question. Typically, you are running
the stats on the thickness, so of course anything that changes thickness
would impact the stats. Am I missing something?
On 7/15/2021 2:34 PM, Alejandro Meruelo wrote:
> External Email - Use Caution
>
> I see, thank
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I see, thank you. Would statistics on cortical thickness calculations
be impacted?
Many thanks again,
Alejandro
On Thu, Jul 15, 2021 at 8:38 AM Douglas N. Greve wrote:
>
> if you are doing statistics on the surface measures, then they will
> impact t
I should add - the tksurfer call is from within
https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/FLICA . Is there an updated version that
doesn’t have this issue?
On Jul 15, 2021, at 10:20 AM, Drucker, Daniel
mailto:ddruc...@mclean.harvard.edu>> wrote:
When running tksurfer in 7.1.1 (from
https://sur
The FIR analysis can only be used with a task. It sounds like you want
to deconvolve the HRF with the pupil diameter? This can be done, but it
is tricky (can't just use FIR). You'd have to create a special task
regressor where you have multiple columns. The first column would be the
current t
For A-TP1-vs-B-TP1, you just create a contrast (not a variable in the
FSGD). The design matrix from your FSGD will have 6+4=10 regressors. The
contrast for A-TP1-vs-B-TP1 would then be
1 -1 0 0 0 0 0 0 0 0
This computes the difference between Class A-TP1 and B-TP1
On 7/13/2021 11:07 AM, Ritobr
The only thing that happens is that it gets demeaned. Maybe that is
causing the confusion?
On 7/14/2021 1:43 PM, Erik Jahner wrote:
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Dear all,
I am trying to figure out the structure of X.dat and where
the mcprextreg parameters are in the table. It is my
if you are doing statistics on the surface measures, then they will
impact the calculations
On 7/14/2021 7:07 PM, Alejandro Meruelo wrote:
> External Email - Use Caution
>
> This is very helpful, thank you! Do the recon-all generated FreeSurfer
> data (e.g., surfaces) impact any of the s
you can use tksurferfv -- this runs freeview but with tksurfer arguments
On 7/15/2021 10:50 AM, Fischl, Bruce wrote:
Hi Daniel
Tksurfer has been deprecated for a long time. Have you tried freeview
instead?
Cheers
Bruce
*From:* freesurfer-boun...@nmr.mgh.harvard.edu
*On Behalf Of *Drucke
Hi Daniel
Tksurfer has been deprecated for a long time. Have you tried freeview instead?
Cheers
Bruce
From: freesurfer-boun...@nmr.mgh.harvard.edu
On Behalf Of Drucker, Daniel
Sent: Thursday, July 15, 2021 10:21 AM
To: freesurfer@nmr.mgh.harvard.edu
Subject: [Freesurfer] /usr/pubsw reference i
When running tksurfer in 7.1.1 (from
https://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/7.1.1/freesurfer-linux-centos7_x86_64-7.1.1.tar.gz
) , I get:
Tcl_Init failed: Can't find a usable init.tcl in the following directories:
/usr/pubsw/packages/tcltktixblt/current/lib/tcl8.4
This proba
Hi Lisa
Is the subject fsaverage symlinked in your SUBJECTS_DIR? Also, the argument to
-s is typically just an identifier, not a path then and identifier. That is, it
should be more like:
recon-all -s subid
instead of
recon-all -s imagedir/subid
I’m not sure if this is the source of your pro
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Hi Lisa,
I think is has something to do with these lines from the log:
```
INFO: fsaverage subject does not exist in SUBJECTS_DIR
INFO: Creating symlink to fsaverage subject...
cd /dfs6/pub/ltaylor2/downs; ln -s
/data/opt/apps/freesurfer/6.0.1/subje
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