Hi all,
Would you mention the author of this method, or any reference that I could
link to a paper regarding that method of generating a tract density image
of neuronal tracts.
BR,
Hila
On Sun, Mar 18, 2012 at 10:24 AM, Peter Neher <[email protected]>wrote:
> 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]>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::TractsToProbabilityImageFilter in
>> Modules/DiffusionImaging/Algorithms?
>>
>>
>>
>> Best
>>
>> Klaus
>>
>>
>>
>>
>>
>> *Von:* Hila Hiler [mailto:[email protected] <[email protected]>]
>> *Gesendet:* Donnerstag, 15. März 2012 12:54
>> *An:* Neher, Peter
>> *Cc:* [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]>
>> Date: Sat, Mar 10, 2012 at 10:10 PM
>> Subject: need advice: measurement of density of fibers
>> To: [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
>
> The information contained in this message may be confidential and legally
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