P.S.:
>> huigu...@hhg-linux:/mnt/freesurfer/subjects/dinghai_4/surf$ cat
/tmp/mos_25794_.m|/usr/local/bin/matlab -display iconic -nojvm -nosplash
Warning: Unable to open display iconic, MATLAB is starting without a
display.
You will not be able to display graphics on the screen.
Hello-
Is there a simple way to obtain the intersection of two labels, output
into a third label? Or the intersection of a label and an .mgh file
output by mri_surfcluster?
For instance, I have a cluster defined by mri_glmfit/mri_surfcluster
that spans multiple anatomical regions, and I want to
sure, you're welcome to the source if you want it. Nick can get you a
version.
cheers,
Bruce
On Thu, 27 Aug 2009 yasheng_c...@med.unc.edu wrote:
Dear all,
It seems that the discussion of releasing the freesurfer source code has been
around for quite some time. Does any one has information
Dear all,
It seems that the discussion of releasing the freesurfer source code has been
around for quite some time. Does any one has information on how to get a copy
of the source code, or how long do we have to wait?
Thank you very much!
Yasheng Chen
Dept. of Radioloy
UNC-CH
___
Nathan,
The significance values displayed are -log10(p), which is easier to
remember this way: a value of '2' (as displayed for a vertex in qdec)
is p=0.01, a value of '3' is p=0.001, etc.
Nick
On Thu, 2009-08-27 at 11:29 -0400, Dankner, Nathan (NIH/NIMH) [F] wrote:
> Hi all,
>
> I've read in
Hi Guang,
I cc'd the freesuefer list as this is where the expert are... :). I do
not think that I fully understand what you want to achieve here, so
bear with me as my response might be really really daft. In that case
I really recommend to bring this onto the experts on the freesurfer
lis
Hi all,
I've read in the wiki that the heatmap display in qdec is a -log10(p). What is
the stat behind this when determining whether the average thickness differs
between two groups? Is it a t?
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Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.
Hello,
I'm getting an error running a LGI compute.
I'm working on multnomah on the
directory: /autofs/space/multnomah_002/users/Cashlab/MG07
I'm using the following command line:
[multnomah:MG07] (nmr-std-env) mris_compute_lgi --i lh.pial
--close_sphere_size 30 --smooth_iters 60
I'm getting
yes, I think it will probably help a bit for mprage scans. Essentially it
changes the default assumptions about noise and contrast characteristics
(it assumes more of both) and will help the intensity normalization get a
bit further out the thin white matter strands. Try it and see what you
thi
Hi,everyone.
The debug output is followed. I think the problem is "$MLF | ${MATLAB}
-display iconic -nojvm -nosplash"
cat /tmp/mos_12142_.m /usr/local/bin/matlab -display iconic -nojvm -nosplash
this command is not implemented rightly. However, when I run only the matlab
cmd, it's seem to be right.
Is there any gain/benefit then by including this -mprage flag? In what
circumstance is that flag to be used?
I'm still confused what the purpose of that flag is.
thanks,
Mike H.
On Thu, 2009-08-27 at 08:54 -0400, Bruce Fischl wrote:
> no, it's more agnostic. Optimized for both spgr and mprage (
no, it's more agnostic. Optimized for both spgr and mprage (or neither,
depending on your perspective). You're probably right that mp-rage is more
common these days, but I think spgrs are still fairly widespread on GE.
On Thu, 27 Aug 2009, Michael Harms wrote:
>
> So, are you saying that the de
So, are you saying that the default recon-all stream is really optimized
for SPGR, and anyone running a MPRAGE should be including the -mprage
flag when they run recon-all? If so, this is news to me, and I suspect
many other FS users.
The default recon-all setting is "set IsMPRAGE = 0", but I su
Please disregard my request:
Have to use
-f 0
-f 1
for frame selection (mri_convert -- help looks vague for -f flag
Thank you,
Alex
Alexander Zaitsev wrote:
> Hello:
>
> I have DICOM PD/T2 dual echo images.
> Is it possible to generate two NIFTI files PD.nii and T2.nii using
> mri_convert?
>
>
Hello:
I have DICOM PD/T2 dual echo images.
Is it possible to generate two NIFTI files PD.nii and T2.nii using
mri_convert?
Thank you,
Alex
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Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/f
Hi Rudolph,
Sorry for the late reply, was busy at work yesterday. Wow, your explanations
are so incredibly clear and you explain things so easily, thank you! It really
helps when I know NOTHING about Linux. I'm going to try what you said below and
see if that helps and then will let you know. S
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