Hi Experts,
I'm creating a template from scratch. When I run mris_make_template is it
enough to run mris_make_template ?h smoothwm subjid my.temp0.tif ? My
question is about which sphere_name I have to put for argument ? I hope I
was clear.
Best regards.
Sophie
Dear FreeSurfer experts,
First of all, congrats for this new 5.2 stable version.
My name is Eduard, and I'm trying to perform de T2 pial refinement in a
pre-processed subject with the B0 image from a DTI. I used that command:
recon-all -autorecon3 -T2pial -s ACC019/ -T2
Hi Chikku
a 30,000 vertex defect means something is dramatically wrong - that's
about 1/4 of the whole cortex. Check your filled.mgz or lh.orig.nofix and
see if the skull is attached or the cerebellum or something. The
computational complexity of the topology fixing is quadratic in the
Hi Sophie,
if you want the template to represent corresponding points across your
subjects you need to use sphere.reg
cheers
Bruce
On Wed, 17 Apr 2013, Sophie Maingault
wrote:
Hi Experts,
I'm creating a template from scratch. When I run mris_make_template is it
enough to
run
Hi Sophie
the surface has to be a spherical one. Internally it will use the geometry
for some other surfaces like smoothwm, but the command line has to be a
spherical surfaces. Usually the first time with an individual subject you
can use sphere, but if you are using multiple ones it should
Yes but I don't want to create a registration template initialized with FS
template (fsaverage). That's why I followed the part creating a
registration template from scratch in this web page
http://surfer.nmr.mgh.harvard.edu/fswiki/SurfaceRegAndTemplates
But for annotation I will have to use
Hello everyone,
I'm using Freesurfer from Texas Medical Center. I'm using an iMac, and am
experiencing regular crashes during these several occasions:
1. Opening more than two volumes at once
2. When one volume and one surface is open and:
a. switching back and forth between different exposé
Hi Nate
how much memory do you have in the machine?
Bruce
On Wed, 17 Apr 2013, Nate Lee
wrote:
Hello everyone,
I'm using Freesurfer from Texas Medical Center. I'm using an iMac, and am
experiencing regular
crashes during these several occasions:
1. Opening more than two volumes at once
2.
Eduard,
Can you send the whole recon-all.log file? The error show below is a
strange one. It appears as if the string ERROR: could not determine
file is the input to mri_convert, and I'm not sure how that can happen.
Also double check (by viewing in freeview) that T2raw.mgz is a valid
file
Hello Bruce,
The iMac has 500GB capacity, and 425GB is not in use.
Best regards,
Nate
On Wed, Apr 17, 2013 at 12:06 PM, Bruce Fischl
fis...@nmr.mgh.harvard.eduwrote:
Hi Nate
how much memory do you have in the machine?
Bruce
On Wed, 17 Apr 2013, Nate Lee wrote:
Hello everyone,
I'm
Hi Nate
how much RAM is there, not disk space.
cheers
Bruce
On Wed, 17 Apr 2013, Nate Lee wrote:
Hello Bruce,
The iMac has 500GB capacity, and 425GB is not in use.
Best regards,
Nate
On Wed, Apr 17, 2013 at 12:06 PM, Bruce Fischl fis...@nmr.mgh.harvard.edu
wrote:
Hi Nate
Hi all!
I am almost ready to do my first longitudinal run with Tracula. I guess that
for the remaining insecurities it is probably best to stick with the
default options but I'd like to be more confident with it and just wanted
to ask which option to choose and why or why not:
My config file
Hi All,
I have a similar error, which I traced back (I think!) to bbregister
failing to write FLAIRraw.lta. My only solution was to download the subject
directories from our linux (RedHat) cluster and run the registration on an
OSX binary. This then creates the .lta file and I upload it back to
Dear Marcos,
1- How do I save the combined 3D view I got as a surface?
Do you want a surface of the whole hippocampus? In that case I would
suggest adding up the probability volumes from all the subfields and
thresholding the resulting volume.
2-I know the hippo-subifields .mgz files are
Hi,
I too am facing the same problem as mentioned by Miklos Argyelan:
http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg28047.html
Jitesh
___
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
15 matches
Mail list logo
