Dear Hila,
we basically walk along the fiber and increase the grey value of each
encountered voxel. Afterwards everything is normalized to one. So you
don't get absolute values how many fibers are passing each voxel but an
indicator of where are many and where are only few fibers in the image.
The filter is called in
QmitkFiberProcessingView::GenerateTractDensityImage so you can use that
as a reference. The simplest example would be the following:
itk::TractDensityImageFilter< float >::Pointer generator =
itk::TractDensityImageFilter< float >::New();
generator->SetFiberBundle(fib);
generator->Update();
where fib is a mitk::FiberBundleX::Pointer.
Best
Peter
On 16.03.2012 18:28, Hila Hiler wrote:
Thank you!
would you please explain :
- how this filter works (a brief description of the algorithm) ?
- example of how to use this filter ? (which inputs to insert, how
to get the output ...)
many thanks in advance ...
Best,
Hila
On Thu, Mar 15, 2012 at 6:32 PM, Peter Neher
<[email protected] <mailto:[email protected]>> wrote:
Actually I recently changed the name to itk::TractDensityImageFilter.
On 15.03.2012 13:20, Fritzsche, Klaus H. wrote:
Dear Hila,
die you see the itk::TractsToProbabilityImageFilterin
Modules/DiffusionImaging/Algorithms?
Best
Klaus
*Von:*Hila Hiler [mailto:[email protected]]
*Gesendet:* Donnerstag, 15. März 2012 12:54
*An:* Neher, Peter
*Cc:* [email protected]
<mailto:[email protected]>
*Betreff:* [mitk-users] Fwd: need advice: measurement of density
of fibers
Dear Peter, Mitk's users
Would you please consider my question?
any ideas/thoughts would be very appreciated!
It's obvious that the density equation is:
[samples/volume]*[samples/fiber]
but I'm afraid it's not the right aspect to this challenge.
maybe the bundle color’s gradients can provide any helpful details?
Best,
Hila
---------- Forwarded message ----------
From: *Hila Hiler* <[email protected] <mailto:[email protected]>>
Date: Sat, Mar 10, 2012 at 10:10 PM
Subject: need advice: measurement of density of fibers
To: [email protected]
<mailto:[email protected]>
Hi all,
How I can calculate the fibers density from a .fib/.vtk 3d image ?
I thought to calculate it along it's direction of longitude.
maybe I should consider to calculate the number of fibers which
are crossing an orthogonal plane?
another q: how I can achieve the gradient value which is
represented as a color on the .fib file?
--
Dipl.-Inform. Peter Neher
German Cancer Research Centre
(DKFZ, Deutsches Krebsforschungszentrum in der Helmholtz-Gemeinschaft, Stiftung
des öffentlichen Rechts)
Division of Medical and Biological Informatics
Im Neuenheimer Feld 280, D-69120 Heidelberg
Phone: 49-(0)6221-42-3552, Fax: 49-(0)6221-42-2345
E-Mail: [email protected], Web: www.dkfz.de
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