Hi Reza,
On Sep 6, 2014, at 13:47 , Reza Rajimehr r...@nmr.mgh.harvard.edu wrote:
I forgot to mention that I want to use undistorted EPI volumes for the
functional-anatomical registration.
Well that is simple then, just undistorted the 3D EPI image you used as
template for motion
Hi Reza,
On Sep 6, 2014, at 13:10 , Reza Rajimehr r...@nmr.mgh.harvard.edu wrote:
Hi,
I have a basic question, but the answer can be useful for others as well.
I am doing a customized preprocessing of monkey functional data in FS-FAST
v5.3. After motion correction and before
of the
freesurfer developers can solve this riddle with you.
Best Regards
Sebastian
Vincent.
On 26.08.2014 16:22, Sebastian Moeller wrote:
Hi Vincent hi Melanie,
please show us the *.orig surfaces on the critical slice. I predict that
these will be identical, If so you can
Hi Caroline,
On Jun 18, 2014, at 18:08 , Caroline Lewis carolineemmale...@gmail.com wrote:
Hi,
I'm using freesurfer on a mac computer, and therefore my mouse doesn't have a
right click or middle button. Is there an alternative way to make edits in
tkmedit (such as to correct voxels
Hi Reza,
On Apr 20, 2014, at 14:58 , Reza Rajimehr r...@nmr.mgh.harvard.edu wrote:
I have done a functional analysis for some contrasts using selxavg3-sess.
In the contrast folders, I have added some files. Now I want to do the
same analysis for some new contrasts. My guess is that
Hi Saurabh,
On Mar 4, 2014, at 07:56 , Saurabh Thakur srbht...@gmail.com wrote:
Hi Markus Gschwind,
I am using Matlab 7.12.0.635 (R2011a),
I am not able to read the dicom image neither brain.mgz file nor the surface
file in matlab.
I have added these file in matlab directory.
Hi,
what happens if you open a terminal and type (without the double quotes):
which tkmedit
which tkmedit.bin
If your path is set correctly there will something along the lines of (example
from my mac):
hms-beagle:netperf-wrapper moeller$ which tkmedit
Hi again,
On Feb 4, 2014, at 14:44 , Saurabh Thakur srbht...@gmail.com wrote:
On Tue, Feb 4, 2014 at 6:56 PM, Bruce Fischl fis...@nmr.mgh.harvard.edu
wrote:
ls -l /usr/local/freesurfer/tktools
Hi Bruce,
I m sending you some result :
Hi again,
On Feb 4, 2014, at 14:57 , Saurabh Thakur srbht...@gmail.com wrote:
On Tue, Feb 4, 2014 at 7:15 PM, Sebastian Moeller
sebastian.moell...@rwth-aachen.de wrote:
tkmedit -f rawavg.mgz
Hi Sebastian,
////
saurabh
Saurabh Thakur,
On Tue, Feb 4, 2014 at 8:28 PM, Sebastian Moeller
sebastian.moell...@rwth-aachen.de wrote:
Hi,
On Feb 4, 2014, at 15:38 , Saurabh Thakur srbht...@gmail.com wrote:
On Tue, Feb 4, 2014 at 7:41 PM, Sebastian Moeller
sebastian.moell...@rwth-aachen.de wrote
Hi Dusan,
(I saw your PN earlier but had no idea and hence did not reply).
But this has more information, so I try again ;)
On Jan 25, 2014, at 02:00 , Dusan Hirjak dusanhir...@hotmail.com wrote:
Dear Freesurferexperts,
I still have the Problem because I can not run the the mris-command to
Hi Dusan,
On Jan 26, 2014, at 15:36 , Douglas Greve gr...@nmr.mgh.harvard.edu wrote:
Hi Dusan, find out where matlab is and add it to your path. Eg, on my mac
matlab is here
/Applications/MATLAB_R2011b.app/bin/matlab
In my .cshrc file, I have
set path = ($path
Dear list,
I notice I took this off-list for no apparent reason…. Maybe it can be useful..
best
Sebastian
Begin forwarded message:
From: Sebastian Moeller sebastian.moell...@rwth-aachen.de
Subject: Re: [Freesurfer] Applying two registration matrices
Date: January 20, 2014 15:09:45
Hi Colin,
On Oct 24, 2013, at 00:24 , Colin Reveley cm...@sussex.ac.uk wrote:
Hi -
I wonder if anyone has experience in dealing with T1 images where there is
hyperintenisty of blood vessels?
This looks like receive transmit surface coil data to me. For
MPRAGEs, in my
Hi Stefano, hi Bruce,
sorry to partly high-jack your thread Stafano. In my experience with NHPs I
often encounter problems like included cerebellum, so I routinely check the
filled.mgz before actually running the surface recon, to confirm that the
cerebellum (or other non-white matter) is NOT
Hi Max,
not speaking for the fressurfer developers, just as a user like yourself...
On May 24, 2013, at 00:58 , Swartz, Max wrote:
Hello,
I am working as a research assistant for the summer with the University of
Cincinnati's Psychiatry department in the Division of Bipolar Disorders
Hi Vincent,
On May 7, 2013, at 23:20 , Vincent Koppelmans wrote:
Dear FreeSurfer experts,
I am trying to create a template for a longitudinal analysis. For each
subject I have 7 time points. The resolution of the T1 images is
1.0x0.98x0.98 mm.
The first step (i.e. the
not contain patient information, please contact the sender and
properly
dispose of the e-mail.
--
Sebastian Moeller
telephone: +1-626-325-8598 /+1-626-395-6523 / +1-626-395-6616
fax: 626-395-8826
German GSM: +49 - 15 77 - 1 90 31 41
mobile: +1-626-325-8598
+1-626-807
(which
is the same as all the other runs that are working fine).
Katie
On Tue, Feb 19, 2013 at 4:46 PM, Sebastian Moeller
sebastian.moell...@rwth-aachen.de wrote:
Hi Katie,
what about just modifying the matlab code that gives the ill-conditioned
error? So for free surfer 4.5 you
-mail was sent to you in
error
but does not contain patient information, please contact the sender and
properly
dispose of the e-mail.
--
Sebastian Moeller
telephone: +1-626-325-8598 /+1-626-395-6523 / +1-626-395-6616
fax: 626-395-8826
German GSM: +49 - 15 77 - 1 90 31 41
mobile
Compliance HelpLine
at
http://www.partners.org/complianceline . If the e-mail was sent to you in
error
but does not contain patient information, please contact the sender and
properly
dispose of the e-mail.
--
Sebastian Moeller
telephone: +1-626-325-8598 /+1-626-395-6523 / +1-626-395-6616
fax
just
takes around 3 minutes to materialize… But I am already at the end of my
knowledge here…
Thank you,
Negar
On Tue, Dec 4, 2012 at 10:57 AM, Sebastian Moeller
sebastian.moell...@rwth-aachen.de wrote:
Hi Negar,
from your log file:
build-stamp.txt: freesurfer-Linux
, 2012-12-04 at 12:35 -0800, Sebastian Moeller wrote:
Hi Negar,
On Dec 4, 2012, at 12:19 , Negar Memarian wrote:
Hi Sebastian,
Thank you for your reply. The virtual machine that I'm using was built by a
friend who also uses FreeSurfer and I copied it entirely onto my computer
(a huge
(recon-all -i), it just crashes during
recon-all -all. This is really important for me and I greatly appreciate any
suggestion/idea.
Best regards,
Negar
On Tue, Dec 4, 2012 at 3:30 PM, Sebastian Moeller
sebastian.moell...@rwth-aachen.de wrote:
Hi Nick,
On Dec 4, 2012, at 14:41
. But I am not looking at the code so I am
basically just rambling here...
best
Sebastian
Thanks, Caspar
2012/11/29 Sebastian Moeller sebastian.moell...@rwth-aachen.de:
Hi Doug, hi Caspar,
which matlab version are you using? We had some issues in the past that some
/transfer/outgoing/flat/greve/
___
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
--
Sebastian Moeller
telephone: +1-626-325-8598 /+1-626-395-6523 / +1-626-395-6616
fax: 626-395
, please contact the sender and
properly
dispose of the e-mail.
___
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
--
Sebastian Moeller
telephone: +1-626-325-8598 /+1-626
/listinfo/freesurfer
--
Sebastian Moeller
telephone: +1-626-325-8598 /+1-626-395-6523 / +1-626-395-6616
fax: 626-395-8826
German GSM: +49 - 15 77 - 1 90 31 41
mobile: +1-626-325-8598
+1-626-807-5242
US CDMA: +1-626-807-5242
moel...@caltech.edu
Division of Biology
MC 114
contains patient information, please contact the Partners Compliance HelpLine
at
http://www.partners.org/complianceline . If the e-mail was sent to you in
error
but does not contain patient information, please contact the sender and
properly
dispose of the e-mail.
--
Sebastian Moeller
not contain patient information, please contact the sender and
properly
dispose of the e-mail.
--
Sebastian Moeller
telephone: +1-626-325-8598 /+1-626-395-6523 / +1-626-395-6616
fax: 626-395-8826
German GSM: +49 - 15 77 - 1 90 31 41
mobile: +1-626-325-8598
+1-626-807
the vox2ras matrices. Shouldn't tkrvox2ras
also be updated? And if not why :) ?
Best
Sebastian
--
Sebastian Moeller
telephone: +1-626-325-8598 /+1-626-395-6523 / +1-626-395-6616
fax: 626-395-8826
German GSM: +49 - 15 77 - 1 90 31 41
mobile: +1-626-325-8598
+1-626-807
the current orientation. Sorry
for the confusion
best
Sebastian
Begin forwarded message:
From: Sebastian Moeller sebastian.moell...@rwth-aachen.de
Date: August 29, 2011 17:10:20 PM PDT
To: freesurfer@nmr.mgh.harvard.edu List freesurfer@nmr.mgh.harvard.edu,
Douglas N Greve gr
.
--
Sebastian Moeller
telephone: +1-626-325-8598 /+1-626-395-6523 / +1-626-395-6616
fax: 626-395-8826
German GSM: +49 - 15 77 - 1 90 31 41
mobile: +1-626-325-8598
+1-626-807-5242
US CDMA: +1-626-807-5242
moel...@caltech.edu
Division of Biology
MC 114-96
California Institute
Warning: Matrix is close to singular or badly scaled.
Results may be inaccurate. RCOND = 1.665831e-43.
In fast_selxavg3 at 212
--
Sebastian Moeller
telephone: 626-807-5242 / 626-395-6523 / 626-395-6616
fax: 626-395-8826
German GSM: 0 15 77 - 1 90 31 41
mobile: +1-626-325-8598
US CDMA
Hi Doug,
sorry for having bothered you before checking closer. Just excluding the
offensive run solved my problem... (now off to figuring out how to detect if I
want to exclude to many timepoints in a run :))
best
Sebastian
On Jan 27, 2011, at 11:54 , Sebastian Moeller wrote
the Partners Compliance HelpLine
at
http://www.partners.org/complianceline . If the e-mail was sent to you in
error
but does not contain patient information, please contact the sender and
properly
dispose of the e-mail.
--
Sebastian Moeller
telephone: 626-807-5242 / 626-395-6523 / 626-395-6616
fax
://www.partners.org/complianceline . If the e-mail was sent to you in
error
but does not contain patient information, please contact the sender and
properly
dispose of the e-mail.
--
Sebastian Moeller
telephone: 626-807-5242 / 626-395-6523 / 626-395-6616
fax: 626-395-8826
German GSM: 0 15
but does not contain patient information, please contact the sender and
properly
dispose of the e-mail.
--
Sebastian Moeller
telephone: 626-807-5242 / 626-395-6523 / 626-395-6616
fax: 626-395-8826
German GSM: 0 15 77 - 1 90 31 41
US CDMA: + 1 - 626 - 807 - 5242
moel...@caltech.edu
Division
site, before I try to switch over from 4.5.
Best Regards
Sebastian
doug
Sebastian Moeller wrote:
Dear All I just noticed that spikedet-sess (for both FS 4.5 and 5.0) will
error out if the mystudy/log directory does not yet exist. I think that
would be easy to fix by including
--
Sebastian Moeller
telephone: 626-807-5242 / 626-395-6523 / 626-395-6616
fax: 626-395-8826
German GSM: 0 15 77 - 1 90 31 41
US CDMA: + 1 - 626 - 807 - 5242
moel...@caltech.edu
Division of Biology
MC 114-96
California Institute of Technology
1200 East California Boulevard
CA 91125, Pasadena
USA
-- Original Message --
Received: Fri, 17 Dec 2010 02:26:28 AM GMT
From: Sebastian Moeller sebastian.moell...@rwth-aachen.de
To: Nisser ali umar nisser...@usa.net
Cc: ryorricks...@gmail.com, Freesurfer@nmr.mgh.harvard.edu, Obisesan Thomas O
tobise...@howard.edu
Subject: Re: [Freesurfer
HelpLine
at
http://www.partners.org/complianceline . If the e-mail was sent to you in
error
but does not contain patient information, please contact the sender and
properly
dispose of the e-mail.
--
Sebastian Moeller
telephone: 626-807-5242 / 626-395-6523 / 626-395-6616
fax: 626-395-8826
___
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
--
Sebastian Moeller
telephone: 626-395-6523 / 626-395-6616
fax: 626-395-8826
German GSM: 0 15 77 - 1 90 31 41
US CDMA: + 1 - 626 - 807 - 5242
moel...@caltech.edu
Division
with -help to get more info.
Ah, super that is a rather simple change to include in my processing
stream... (I hope this is all that will be required for v5 :))
Best
Sebastian
doug
Sebastian Moeller wrote:
Hi Luis,
On Nov 28, 2010, at 16:48 , Luis Lafer-Sousa wrote
/complianceline . If the e-mail was sent to you in
error
but does not contain patient information, please contact the sender and
properly
dispose of the e-mail.
--
Sebastian Moeller
telephone: 626-395-6523 / 626-395-6616
fax: 626-395-8826
German GSM: 0 15 77 - 1 90 31 41
US CDMA: + 1 - 626 - 807
at
http://www.partners.org/complianceline . If the e-mail was sent to you in
error
but does not contain patient information, please contact the sender and
properly
dispose of the e-mail.
--
Sebastian Moeller
telephone: 626-395-6523 / 626-395-6616
fax: 626-395-8826
German GSM: 0 15 77 - 1
already switched to snow leopard then ;). Well, I will
just continue doing my real work on Linux... (Especially since the macosx build
seems 32 bit)
Best
Sebastian
n.
On Mon, 2010-08-16 at 11:35 -0700, Sebastian Moeller wrote:
Hi Nick,
pretty cool. It looks like
with
a high TER would work?
or both?
I will just go and try both, I guess :)
Thank you very much for your help
Best
Sebastian
On Jul 30, 2010, at 8:23 AM, Douglas N Greve wrote:
I have not tried it, but that should work.
doug
Sebastian Moeller wrote:
Dear fellow Surfers
/complianceline . If the e-mail was sent to you in
error
but does not contain patient information, please contact the sender and
properly
dispose of the e-mail.
--
Sebastian Moeller
telephone: 626-395-6523 / 626-395-6616
fax: 626-395-8826
German GSM: 0 15 77 - 1 90 31 41
moel...@caltech.edu
that by specifying a TER and have both staggered around
the real onset time? I would be happy to receive any pointer.
Thanks in advance best regards
Sebastian
--
Sebastian Moeller
telephone: 626-395-6523 / 626-395-6616
fax: 626-395-8826
German GSM: 0 15 77 - 1 90 31 41
moel...@caltech.edu
Division
leave any space in
gEditBrush(1,mode)
The first argument of gEditBrush denotes the brush. 0 means Brush 2
and 1 means Brush 3. Let us know if it works
-Krish
On Jul 28, 2010, at 3:22 PM, Sebastian Moeller wrote:
Aloha fellow surfers,
I am trying to script a few steps of my
to set Button 3 to clone from aux vol I would be happy to hear it.
Thanks in advance.
Best
Sebastian
--
Sebastian Moeller
telephone: 626-395-6713
fax: 626-395-8826
German GSM: 0 15 77 - 1 90 31 41
moel...@caltech.edu
Division of Biology
MC 114-96
California Institute of Technology
ignore
if you already fixed this.
Many Thanks for your exceptionally nice software...
best
Sebastian
Begin forwarded message:
From: Sebastian Moeller sebastian.moel...@lur.rwth-aachen.de
Date: April 7, 2010 5:28:53 PM PDT
To: Freesurfer Mailing List freesurfer@nmr.mgh.harvard.edu
Hi Fred,
yu probably checked the following already, but on the off chance you have
not... Maybe you have set X11 to 256 color mode? Start X11.app (from
/Applications/Utilities) go to the X11 menu, select Preferences..., switch to
the tab called output and see what is selected for Colors. If it
Hi Krishna,
how does your brainmask look? In my experience, if you use bet to create a
brainmask for monkeys, occasionally the brain center is positioned to far
posterior. This seems to cause to a loss of frontal gray white matter in the
brainmask. That in turn, would crop these parts away
Dear Freesurfers,
I just tried to use mri_motion_correct.fsl with the -tmpdir and -nocleanup
options. Since I currently average around 10 to 16 mprage volumes per subject
(NHPs) I want to look at the variance in addition to the average. And it seemed
simplest to just keep the co-registered
Hi Janani,
I seem to recall that newer distributions (and judging from your kernel it is a
rather new distribution) come with libtiff.so.4 instead of libtiff.so.3. My
solution to this problem so far just was to symlink libtiff.so.4 to
libtiff.so.3. (Just go in the directory where the library
Hi Paige,
I ran into a similar problem a few months ago. Freesurfer 3.0.5 could not read
data from a TIM trio with numaris B17. I solved this by transplanting (copying)
a number of files from freesurfer 4.4.0 (the recent one at the time) into
3.0.5. unpacsdcmdir, mri_convert and a few more,
not possible, I'd prefer to transplant files; multiple operational versions
of software does get confusing, but that would also work as a last resort.
Thanks,
Paige
On Fri, Mar 19, 2010 at 3:10 PM, Sebastian Moeller
sebastian.moel...@lur.rwth-aachen.de wrote:
Hi Paige,
I ran
be much nicer though :)
Thanks for looking into this
Sebastian
On Feb 22, 2010, at 11:15 AM, Douglas N Greve wrote:
OK, I can replicate with this data. Let me see what's going on.
Sebastian Moeller wrote:
Hi Doug,
On Feb 19, 2010, at 7:16 AM, Douglas N Greve wrote:
Hmmm, da
the resulting .nii float has the reported problem.
All the data is from a v17 TIM trio maybe there is something wonky in the
headers... Anything I should try to figure this out?
Best
Sebastian
doug
Sebastian Moeller wrote:
Dear Freesurfer Experts,
I am a happy user of freesurfer
please let me
know what I can do to help.
best regards thanks for all the cool tools in freesurfer
Sebastian
--
Sebastian Moeller
telephone: 626-395-6713
fax: 626-395-8826
German GSM: 0 15 77 - 1 90 31 41
moel...@caltech.edu
Division of Biology
MC 114-96
California Institute
Hi Tamara,
neuroecon is not ia64 but x86_64, that is you binaries will probanbly never run
on this cluster no matter the permissions. You can just ask the neuroecon
support people (help-...@caltech.edu) to install 4.5.0 under /share/apps. In
addition to actually use freesurfer on this system
the xstart, ystart and zstart
are wrong for nii as unpack target). In both cases does the unpack log give 96
as FOV. Is this something to be alarmed about? Should I send example DICOMS?
Best Regards many thanks for the great tools
Sebastian
--
Sebastian Moeller
telephone: 626-395-6713
Hi List, hi Doug,
I just started to use freesurfer 4.5.0 for functional data (before I only used
3.0.5). Now I see that the whole analysis workflow has changed from
mkanalysis-sess.new - selxavg-sess - mkcontrast-sess - stxgrinder-sess to
mkanalyss-sess - mkcontrast-sess - selxavg3-sess, now
Aloha,
tksurfer is extremely picky about the underlaying opengl libraries,
many do not work at all. People had dofferent degrees of success
updating the graphic drivers on their computers to the most recent
versions their hardware maker saupplies (if I recall correctlt
especially with
® is up to 70% faster. Now good news travels really
fast.
Try
it now.
--
Sebastian Moeller
telephone: 626-395-6713
German GSM: 0 15 77 - 1 90 31 41
moel...@caltech.edu
Division of Biology
MC 114-96
California Institute of Technology
1200
/freesurfer4.4.0/lib/tcl/fsgdfPlot.tcl
Reading /home/freesurfer4.4.0/lib/tcl/tkUtils.tcl
Successfully parsed tksurfer.tcl
reading white matter vertex locations...
I also tried setenv doublebufferflag 0, which also did not work.
Thanks,
Corinna
On Wed, Aug 5, 2009 at 1:05 PM, Sebastian Moeller
\
-subjid ${tmp_subj} \
-cc-crs ${CC_string} \
-pons-crs ${PONS_string} \
-noaseg \
-xopts-use
Thanks in advance,
Regards,
Falk
I hope this helps
Sebastian
--
Sebastian Moeller
telephone: 626-395-6713
German GSM: 0
...
#autoreg-sess –sf sessid –df sesspar
# last line follows...
--
Sebastian Moeller
telephone: 626-395-6713
German GSM: 0 15 77 - 1 90 31 41
moel...@caltech.edu
Division of Biology
MC 114-96
California Institute of Technology
1200 East California Boulevard
CA 91125, Pasadena
USA
to alert the users.
Thanks for developing supplying these great tools
--
Sebastian Moeller
telephone: 626-395-6713
German GSM: 0 15 77 - 1 90 31 41
moel...@caltech.edu
Division of Biology
MC 114-96
California Institute of Technology
1200 East California Boulevard
CA 91125, Pasadena
USA
volumes like tkmedit
does? It
doesn't need to be included within FreeSurfer but it would be better
if it
could handle the .mgz format.
Regards,
Falk
--
Sebastian Moeller
telephone: 626-395-6713
German GSM: 0 15 77 - 1 90 31 41
moel...@caltech.edu
Division of Biology
MC 114-96
California
brain.unmasked.mgz. Again I am interested to learn whether
there is any reasoning to use the -monkey parameter here. (Since the
full recon takes a while, doing trial and error here is a bit less
attractive)
Thank you very much in advance for any insight,
aloha
Sebastian
--
Sebastian Moeller
scripts? Please let me know...
ahoi
Sebastian
--
Sebastian Moeller
telephone: 626-395-6713
German GSM: 0 15 77 - 1 90 31 41
moel...@caltech.edu
Division of Biology
MC 114-96
California Institute of Technology
1200 East California Boulevard
CA 91125, Pasadena
USA
4) optionally include the subject's /script/recon-all.log
See also: http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
Any idea, what I can do?
--
Sebastian Moeller
telephone: 626-395-6713
German GSM: 0 15 77 - 1 90 31 41
moel...@caltech.edu
Division of Biology
MC 114-96
California
, loaded
the data
in successfully and requested an analysis with two continuous
variance. The
following is the final output before it crashes because it cannot
allocate
memory. I have the maximum memory in my machine. What can I do?
--
Sebastian Moeller
Tel.: 04 21 - 2 18 - 90 96
Fax.: 04
is appreciated.
Thank you.
--
Sebastian Moeller
Tel.: 04 21 - 2 18 - 78 38 oder 96 91
Fax.: 04 21 - 2 18 - 90 04
GSM: 0 15 77 - 1 90 31 41
[EMAIL PROTECTED]
AG Kreiter / FB 2
Institut fuer Hirnforschung III
Abteilung Theoretische Neurobiologie
Universitaet Bremen
Biogarten
Hochschulring 16a
??? (???) /usr/lib/
libobjc.A.dylib
0x - 0x1780 libSystem.B.dylib ??? (???) /usr/lib/
libSystem.B.dylib
--
Sebastian Moeller
Tel.: 04 21 - 2 18 - 78 38 oder 96 91
Fax.: 04 21 - 2 18 - 90 04
GSM: 0 15 77 - 1 90 31 41
[EMAIL PROTECTED]
AG Kreiter / FB 2
Institut fuer Hirnforschung
/A/SystemConfiguration
0xfffe8000 - 0xfffebfff libobjc.A.dylib ??? (???) /usr/lib/
libobjc.A.dylib
0x - 0x1780 libSystem.B.dylib ??? (???) /usr/lib/
libSystem.B.dylib
--
Sebastian Moeller
Tel.: 04 21 - 2 18 - 78 38 oder 96 91
Fax.: 04 21 - 2 18 - 90 04
GSM: 0 15 77 - 1 90 31 41
[EMAIL
. Thanks in advance.
ahoi
Sebastian
cheers,
Bruce
On Tue, 22 Jan 2008, Sebastian Moeller wrote:
Dear Experts,
after ages of monkey scanning, we recently also included human
subjects in our study. I would like to use freesurfer for surface
reconstruction, mainly as canvas
thanks
Sebastian
Mike
From: Sebastian Moeller [EMAIL PROTECTED]
Date: Tue, 22 Jan 2008 15:10:15 +0100
To: Bruce Fischl [EMAIL PROTECTED]
Cc: Mailing Freesurfer List freesurfer@nmr.mgh.harvard.edu,
Andre van der
Kouwe [EMAIL PROTECTED], Mike Chee [EMAIL PROTECTED]
Subject: Re
@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
End of Freesurfer Digest, Vol 46, Issue 29
**
--
Sebastian Moeller
Tel.: 04 21 - 2 18 - 78 38 oder 96 91
Fax.: 04 21 - 2 18 - 90 04
GSM: 0 15 77 - 1 90 31 41
[EMAIL PROTECTED]
AG Kreiter
(iunder,:);
else
Ahoi thanks supplying powerful tools
Sebastian
--
Sebastian Moeller
Tel.: 04 21 - 2 18 - 78 38 oder 96 91
Fax.: 04 21 - 2 18 - 90 04
GSM: 0 15 77 - 1 90 31 41
[EMAIL PROTECTED]
AG Kreiter / FB 2
Institut fuer Hirnforschung III
Abteilung Theoretische Neurobiologie
Universitaet
scripts
thank you very much for the powerful tools as always ahoi
Sebastian
--
Sebastian Moeller
Tel.: 04 21 - 2 18 - 78 38 oder 96 91
Fax.: 04 21 - 2 18 - 90 04
GSM: 0 15 77 - 1 90 31 41
[EMAIL PROTECTED]
AG Kreiter / FB 2
Institut fuer Hirnforschung III
Abteilung Theoretische
**
--
Sebastian Moeller
Tel.: 04 21 - 2 18 - 78 38 oder 96 91
Fax.: 04 21 - 2 18 - 90 04
GSM: 01 62 - 3 25 45 59
[EMAIL PROTECTED]
AG Kreiter / FB 2
Institut fuer Hirnforschung III
Abteilung Theoretische Neurobiologie
Universitaet Bremen
Biogarten
Hochschulring 16a
the
thresholds for overlay 1, without any masking?
thanks ahoi
Sebastian
--
Sebastian Moeller
Tel.: 04 21 - 2 18 - 78 38 oder 96 91
Fax.: 04 21 - 2 18 - 90 04
GSM: 01 62 - 3 25 45 59
[EMAIL PROTECTED]
AG Kreiter / FB 2
Institut fuer Hirnforschung III
Abteilung Theoretische Neurobiologie
Hi List,
sorry for not being able to read, as promised lib/tcl/
tkm_functional.tcl showed how to use it.
ahoi
Sebastian
On Jun 2, 2007, at 9:23 PM, Sebastian Moeller wrote:
Hi List,
getting into scripting of freesurfer I wonder whether it is
possible to script false discovery
guess that does not really matter.
ahoi thanks for supplying these nice powerful tools
Sebastian
--
Sebastian Moeller
Tel.: 04 21 - 2 18 - 78 38 oder 96 91
Fax.: 04 21 - 2 18 - 90 04
GSM: 01 62 - 3 25 45 59
[EMAIL PROTECTED]
AG Kreiter / FB 2
Institut fuer Hirnforschung III
Abteilung
thing later on the .img works like a
charm, I am now puzzled whether this is the right behaviour.
I am more than willing to test anything out or send test images if
that helps...
Anyway, thanks for the nice tools and the great support
Ahoi
Sebastian
--
Sebastian Moeller
Tel.: 04 21 - 2
Sebastian
Nick
On Tue, 2006-12-12 at 02:54 +0100, Sebastian Moeller wrote:
Hi Doug, hi list,
recently you implemented a version of mri_nu_correct.mni for me that
allows for better settings for surface coil recordings. I dragged your
change from 3.0.3 into 3.0.4 and just now realised
$XOptsFile`;
and then replace the original line 521, now line 522 with the following:
--o nu.mgz --n $NuIterations $xopts)
(basically this adds $xopts to the creation of cmd).
then it works like it expected.
Thanks for all the tools the support
Sebastian
--
Sebastian Moeller
Tel
on this list.
aloha
Sebastian
- cut me -
#!/bin/sh
LD_LIBRARY_PATH=${LD_LIBRARY_PATH}:${FSLDIR}/lib
export LD_LIBRARY_PATH
$FSLDIR/bin/fslview_exe $@
-- cut me -
--
Sebastian Moeller
Tel.: 04 21 - 2 18 - 78 38 oder 96 91
Fax.: 04 21 - 2 18 - 90 04
GSM: 01 62 - 3 25 45 59
of my speciemens into the ftp drop last week,
any idea how to improve the quality of the recon/surface extraction?
ahoi
Sebastian
--
Sebastian Moeller
Tel.: 04 21 - 2 18 - 78 38 oder 96 91
Fax.: 04 21 - 2 18 - 90 04
GSM: 01 62 - 3 25 45 59
[EMAIL PROTECTED]
AG Kreiter / FB 2
Institut
out there...
ahoi sorry
--
Sebastian Moeller
Tel.: 04 21 - 2 18 - 78 38 oder 96 91
Fax.: 04 21 - 2 18 - 90 04
GSM: 01 62 - 3 25 45 59
[EMAIL PROTECTED]
AG Kreiter / FB 2
Institut fuer Hirnforschung III
Abteilung Theoretische Neurobiologie
Universitaet Bremen
Biogarten
Hochschulring 16a
any comments.
ahoi
Sebastian
On Fri, 3 Nov 2006, Sebastian Moeller wrote:
Hi List,
On 3. Nov 2006, at 19:48 Uhr, [EMAIL PROTECTED]
wrote:
Message: 10
Date: Fri, 03 Nov 2006 13:48:18 -0500
From: Nick Schmansky [EMAIL PROTECTED]
Subject: Re: [Freesurfer] parameters for N3 correction
for us? Make sure to make backups of your
current versions of recon-all and mri_nu_correct.mni :).
Wahoo, I am impressed, that was fast; that works for me and is much
nicer than my unconditional hack to always set those parameters.
thanks ahoi
Sebastian
doug
Sebastian Moeller wrote
;). And pointers how
to improve the quality are welcome.
ahoi
Sebastian
On Fri, 3 Nov 2006, Sebastian Moeller wrote:
Hi Bruce,
On 3. Nov 2006, at 20:33 Uhr, Bruce Fischl wrote:
do you mean single channel surface coils? Can you get decent
surfaces out of that kind of data???
Well, yes
in mkanalysis)? So far any nicorr value I used
produced errors on the way...
I would be delighted for any pointer of how to properly convinve
fs-fast to analyse my data ;).
Ahoi thanks
Sebastian
--
Sebastian Moeller
Tel.: 04 21 - 2 18 - 78 38 oder 96 91
Fax.: 04 21 - 2 18 - 90 04
GSM: 01 62
Hi Doug,
On 28. Aug 2006, at 23:55 Uhr, [EMAIL PROTECTED]
wrote:
Date: Mon, 28 Aug 2006 17:53:30 -0400
From: Doug Greve [EMAIL PROTECTED]
Subject: [Freesurfer] Re: newbie question event-related
To: Sebastian Moeller [EMAIL PROTECTED]
Cc: Freesurfer Mailing List freesurfer@nmr.mgh.harvard.edu
value from the h-offset volume result in percent of total?
ahoi
Sebastian
--
Sebastian Moeller
Tel.: 04 21 - 2 18 - 78 38 oder 96 91
Fax.: 04 21 - 2 18 - 90 04
GSM: 01 62 - 3 25 45 59
[EMAIL PROTECTED]
AG Kreiter / FB 2
Institut fuer Hirnforschung III
Abteilung Theoretische Neurobiologie
1 - 100 of 131 matches
Mail list logo