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Dear Freesurfer exports,
I am unable to launch freeview. I have uncommented qt_setup to be able to start
freeview but now it does not start at all. I am sending output from a session
where I started it using gdb.
Please look below. I am using the
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Dear colleagues,
2PhD and 1 post-doc positions are available at my group, University of
Lausanne, Switzerland. The positions are funded for 4 years (with annual
contract renew) by the Swiss National Science Foundation grant. Ideally
starting on January
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Dear FreeSurfer team,
In order to improve the skull stripping for some of the participants of the
sample, I replaced the brainmask.mgz generated in FreeSurfer by the betted
image generated from FSL, and I run recon-all again. The problem is that,
S_ is for sulcus and G_ is for gyrus, so S_central is the central sulcus. I
think Christophe included a table in his paper (right Christophe?)
cheers
Bruce
On
Wed, 14 Nov 2018, Colin Birkenbihl wrote:
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Dear all,
I am currently working with MRI
mri_segstats using your VOI as the arg to --seg. Also include --excludeid 0
On 11/14/2018 06:14 PM, Kim, Jisoo,M.D. wrote:
>
> Hello Freesurfer developers,
>
>
> I am trying to get volume measurements (mm^3) on VOIs (volume of
> interest) that I created on Freeview. All I can do is to export the
Hello Freesurfer developers,
I am trying to get volume measurements (mm^3) on VOIs (volume of interest) that
I created on Freeview. All I can do is to export the VOI as an .mgz file. Do
you know of an easy way to get the stats in .txt or any other formats?
1) Freesurfer version:
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Dear list members,
I run mri_glmfit using the aparc stats tables as input and I got a
sig.table.dat file with -log10(p-values) for each ROI and contrast.
Are the p-values already corrected for multiple comparisons? If not,
what do I have to do
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Dear Free Surfer team,
Sorry for double posting but I would like to explain well so it will be
easier to understand what I am looking for.
1. I have run recon-all -all in a participant
2. The skull stripped image has skull and dura behind.
3. I can
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I got today's build, and this issue is gone. The rest of recon-all still
hasn't finished running on my test data but I'll holler if I run into
any other problems. Thanks much!
fsbuild wrote:
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Hello Baxter,
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Hi Daiana
It’s impossible to tell since the anatomical classes of this atlas are limited
by the sulco-gyral pattern ; for instance the mPFC includes only part of the
superior frontal gyrus (its medial aspect) but the superior frontal gyrus also
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I’ve tried processing a healthy brain through v6.0.0 and _dev versions only to
get hung at this step in each of the versions.
The brain looks normal. I’ve tried adjusting the skull strip and using control
points in a location that the brain was
Hi Chris
Is this dev? If so it is a bug that should be fixed now
CheerA
Bruce
> On Nov 14, 2018, at 2:16 PM, Chris Petty wrote:
>
> External Email - Use Caution
>
>
>>
>> I’ve tried processing a healthy brain through v6.0.0 and _dev versions only
>> to get hung at this step
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Hi Douglas,
Thank you so much for your response. We just want to be extra careful about
the way we are doing this and so below I have outlined the exact pattern of
the group descriptor files we are using along with the contrast. Please let
me know if
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Hi Freesurfer experts,
I'm writing to ask about coregistration between a thin oblique coronal slab
of DTI image ( only 15 slices) and a cubic 1x1x1 voxel size anatomical
image (volume size is 256x256x256), with additional whole brain
low-resolution
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Dear all,
I am currently working with MRI features calculated with the Destrieux
atlas.
As an output I have features named like:
Vol_Right_S_Central
Vol_Left_G_precentral
or
Vol_Left_S_orbital-H_Shaped
I wanted to ask you, what these features stand
It looks like you might have a very big defect. Probably there is a bit
of skull or cerebellum still attached. Follow the tutorial for checking
for and fixing defects.
On 11/14/2018 02:59 AM, 1013364183 wrote:
>
> ?0?2?0?2?0?2?0?2?0?2?0?2?0?2?0?2External Email - Use Caution
>
> Dear Bruce
They are not. You can compute the p-value (10^-abs(sig)), then multiply
it by the number of comparisons
On 11/14/2018 09:18 AM, Ralf Veit wrote:
> External Email - Use Caution
>
> Dear list members,
>
> I run mri_glmfit using the aparc stats tables as input and I got a
> sig.table.dat
On 11/14/2018 04:00 PM, Yixin Ma wrote:
>
> External Email - Use Caution
>
> Hi Freesurfer experts,
>
> I'm writing to ask about coregistration between a thin oblique coronal
> slab of DTI image ( only 15 slices) and a cubic 1x1x1 voxel size
> anatomical image (volume size is
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Hello Knut,
You might be better off using the gcc 4.8 compilers on Ubuntu 18 which you can
install with$ sudo apt-get install gcc-4..8 g++-4.8 gfortran-4.8
Then on your cmake command line you could set those before the actual cmake
command. I've
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