Hi All,
I need to classify WM into different lobes (temporal, parietal, frontal,
occipital). I tried to do the lobe mapping using parcellations from
wmparc.mgz. http://surfer.nmr.mgh.harvard.edu/fswiki/CorticalParcellation
My problem is the "unsegmented white matter" in wmparc.mgz. My understandi
Hello,
as I am interested in the volume of ventricular structures in the brain, I
would like to more precisely understand the labels given by
/stats/aseg.stats in Freesurfer.
Most importantly, what is the precisely defined difference between
Left-Lateral-Ventricle and Left-Inf-Lat-Vent? Would you
Dear FS' users,
I have a 3D T1 from a GE scanner which I convert with dcm2nii to use it with
recon-all, but I got 3 images:
o -- original
oo -- orthogonal
co -- cropped image
Which I should use to run the command recon-all?
thanks!
Carolina
___
Freesu
Hi Jeff,
after editing anything in the cross, you usually need to rerun the base
(and then all longs).
Also you need to edit the base (brainmask, talairach) as that is where
the long processes take the information from. It is more important to
fix the base than the cross in many cases.
More on lo
Dear FS list,
1. What does a label Thalamus Proper include? Is it the same as thalamus?
2. After correcting for multiple comparisons, I get a table of
clusters. I have several questions regarding this table: What do the
columns Max, CWPLow, and CWPHigh represent? Regarding the NVtxs
column: is it
I'm not sure about #1, maybe BF can chime in.
Tetiana Dadakova wrote:
> Dear FS list,
>
> 1. What does a label Thalamus Proper include? Is it the same as thalamus?
>
> 2. After correcting for multiple comparisons, I get a table of
> clusters. I have several questions regarding this table: What do
I have no idea, but probably the original.
doug
Carolina Valencia wrote:
> Dear FS' users,
>
> I have a 3D T1 from a GE scanner which I convert with dcm2nii to use
> it with recon-all, but I got 3 images:
> o -- original
> oo -- orthogonal
> co -- cropped image
>
> Which I should use to run the
The grad_unwarp_tables directory is not distributed with the public
release of freesurfer, as the files are under Siemens license to the NMR
Center only. So I suppose you could check with Siemens to see if they can
supply you with those data tables for your scanner.
N.
> Hello,
>
> We used to r
Actually I have the same question - does the thalamus proper include LGN ?
- Original Message -
From: "Douglas N Greve"
To: "Tetiana Dadakova"
Cc: freesurfer@nmr.mgh.harvard.edu
Sent: Friday, September 2, 2011 12:28:45 PM
Subject: Re: [Freesurfer] what is thalamus-proper and clusters-tab
Hi Freesurfers,
I've been looking at the wiki for information on doing an surface analysis
using GFEAT results for within subject, across multiple runs. On the wiki,
a fixed effects analysis was used because there were only two runs. I have
four runs and FSL uses FLAME 1 and FLAME 1+2.
1. Shoul
Yes, not sure why the CMA called it that
On Sep 2, 2011, at 12:28 PM, Douglas N Greve wrote:
> I'm not sure about #1, maybe BF can chime in.
>
> Tetiana Dadakova wrote:
>> Dear FS list,
>>
>> 1. What does a label Thalamus Proper include? Is it the same as thalamus?
>>
>> 2. After correcting
I dint think it does, but maybe jean or David can confirm
On Sep 2, 2011, at 1:07 PM, Ritobrato Datta wrote:
> Actually I have the same question - does the thalamus proper include LGN ?
>
> - Original Message -
> From: "Douglas N Greve"
> To: "Tetiana Dadakova"
> Cc: freesurfer@nmr.
Hello,
When I segmented the Hippocampal Subfields (using the process stated in
http://www.freesurfer.net/fswiki/HippocampalSubfieldSegmentation ) it
generated two files by name *"posterior_Left-Hippocampus.mgz"* and *
"posterior_Right-Hippocampus.mgz*". I would like to know what actually are
those
I don't think it does. Jean manually labeled LGN in a few cases for me a
few years ago, and I vaguely remember that LGN did not overlap with our
thalamus seg (but I could be wrong).
doug
Bruce Fischl wrote:
> I dint think it does, but maybe jean or David can confirm
>
>
> On Sep 2, 2011, at 1:07
I am also using dcm2nii and running recon-all with the original image. It is
working ok so far.
Alfredo
> Date: Fri, 2 Sep 2011 12:30:26 -0400
> From: gr...@nmr.mgh.harvard.edu
> To: cvalen...@linkdx.com.co
> CC: freesurfer@nmr.mgh.harvard.edu
> Subject: Re: [Freesurfer] dcm2nii and recon all
>
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