they aren't released yet, but we are working on them
On Tue, 14 Apr 2020,
Koustav Chatterjee wrote:
External Email - Use Caution
Dear Sir,I am afraid I am yet to find pedunculopontine nucleus and locus
coeruleus in particular through FS dev versions of labelings volume.
Could you please help me out?
Best Regards,
KC
On Sun, Apr 12, 2020 at 10:46 PM Bruce Fischl <[email protected]>
wrote:
Hi Koustav
the current version of FS requires a T1-weighted input but could
also use
a T2 to improve accuracy and automaticity. Future versions will
relax
this constraint.
As for 2D/3D, you have to distinguish the acquisition type
(which almost
always should be a 3D sequence like an MP-RAGE or a 3D
FLASH/SGPR) from
the model. When we say "2d cortical surface" we are talking
about
extracting that model ("reconstructing" it) from the 3D data
As for the structures you mention, we have dev versions of
labelings for
all of them I believe, but I defer to Doug on the details
cheers
Bruce
On Sun, 12 Apr 2020, Koustav Chatterjee wrote:
>
> External Email - Use Caution
>
> Dear all,
> I am a beginner in FreeSurfer world.
> I have 4 questions. It would be kind enough if you could
clarify my
> confusions.
> * I have came across that 'Freesurfer can reconstruct 2D
cortical surface
> from 3D T1 MRI brain image'. However, I know that T1 2D
brain images are
> being fed to freesurfer for 'Recon-all...-all' to function
all its
> pre-processing steps.
> Whether ".......reconstruct 2D cortical surface from 3D T1 MRI
image" this
> statement is true? Is there any step where FreeSurfer make a
3D image from
> 2D T1 images and again reconstruct them into 2D
> cortical surface through preprocessing steps?
>
> * Can FreeSurfer only recognize 'T1 weighted images' for
processing? Why
> only T1, why not T2 or Flair etc?
> * Can we estimate the volume of substantia nigra,
pedunculopontine nucleus
> and locus cereleus using FreeSurfer? If so any specific
version
> of Freesurfer is required?
> * If I have Freesurfer installed in my PC; I also have T1
and diffusion
> weighted image sequence of a subject. Can I use 'Tracula'
to analyse
> tracts of that subject's brain directly? How could I
analyse tracts in
> Freesurfer?
> Thank you for your time and effort.
> Regards,
> Koustav
>
>
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