Hi, expert,
I used freesurfer on a 32bit ubuntu operation system some days ago. For one
subject, the "recon-all -s $filename -all" command need 30 hours or less. I
changed it to 64bit Centos operation system, however, the precessing time
needed for one subject seems longer than on 32bit system
actually, we have a DLPFC label I think, or a couple of them drawn on
fsaverageOn Sat, 12 Jun 2010 ra...@nmr.mgh.harvard.edu wrote:
> Hi Fatima,
>
> As Bruce mentioned, this is a poorly defined region. Within the PFC, what
> exactly are you measuring? DLPFC or some the whole of the PFC? If you ar
Hi Fatima,
As Bruce mentioned, this is a poorly defined region. Within the PFC, what
exactly are you measuring? DLPFC or some the whole of the PFC? If you are
interested in evaluating DLPFC, my suggestion would be to manually draw it
yourself on the fsaverage (as Bruce mentioned) and map it onto e
Hi Gad,
the patch files are not in the same format as the surfaces. You need to
load a surface (e.g. lh.inflated) then load the patch afterwards, or load
it on the command line with -patch.
cheers
Bruce
On Mon, 7 Jun 2010, Gad Klein wrote:
> I am having a problem using tksurfer. It does not
Hi Tina,
you can sample the surface labels into the volume using mri_label2vol.
That is on either white or pial surface or filling the ribbon.
cheers
Bruce
On Mon, 7 Jun
2010, Tina Jeon wrote:
> Hello freesurfers!
>
> After creating some labeling files from aparc.a2005s.annot, I noticed that m
Hi Fatima,
we do the cc, which you'll find in the aseg.mgz.
cheers
Bruce
On Tue, 8 Jun 2010, Ahmed,
F, Me wrote:
> Hello FS experts,
>
> A quick question, I'm looking for specific brain regions, but I can't seem to
> find them in the files once processing has been completed, I'm just wonderin
1. Koen Van Leemput (ccd) has been working on this - check with him.
2. Hmm, that's though. I guess we should really disable the surface
deformation in regions labeled as lesion, which would mean you need to edit
the aseg. If you want to try that we can build a version with
lesion/hypointensitie
Hi Fatima,
it's kind of a poorly-defined region, so I'm not sure how to answer.
Those labels don't make up all of prefrontal cortex. Maybe the easiest
thing to do is to draw it yourself on fsaverage and map it back to all your
subjects. Or maybe Rahul could answer.
cheers,
Bruce
On Wed, 9 Ju
there is definitely a thickness bias going from 1.5T to 3T, as we
documented in Xiao Han's paper, due to the changing T1s at different field.
I don't know why there would be a lateralization in this, unless your have
an asymmetric bias field, which can happen, paticularly if say one coil
elemen
Hi Gregory,
you could try flirt.
cheers
Bruce
On Fri, 11 Jun 2010, Gregory
Dierksen wrote:
>
> Does FreeSurfer (or FSL) have any commands that support CT registration?
>
>
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Hi Guang,
why are you trying to avoid the nu intensity correction? I guess you
could copy orig.mgz to nu.mgz and see if that works. We will still need to
run our intensity correction (mri_normalize) otherwise the segmentation
will fail.
cheers
Bruce
On Fri, 11 Jun 2010,
Guang Zeng wrote:
>
>
Hi Leonardo,
the outputs are listed on our wiki. If you want to extract a single
structure you can use mri_binarize using the indices in the
$FREESURFER_HOME/FreeSurferColorLUT.txt file.
cheers
Bruce
On Sat, 12 Jun 2010, Leonardo
Chesi wrote:
> Hi, after the segmentation process, we obtain a
Hi, after the segmentation process, we obtain a lots of file that I can't
understand what they represent. Infact I know the mean of the file aseg.mgz
(that is a mask of the segmentation) and norm.mgz but for example I can't
understand the difference between brainmask.mgz and brainmask_auto.mgz. Can
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