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fanDTasia ToolBox

by Angelos Barmpoutis

 

18 Mar 2010 (Updated 17 Jun 2011)

A library for DW-MRI Processing, DTI & DKI Estimation, Higher-Order Tensor analysis & Visualization.

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Description

A Matlab library for Diffusion Weighted MRI (DW-MRI) Processing, Diffusion Tensor (DTI) Estimation, Diffusion Kurtosis (DKI) Estimation, Higher-order Diffusion Tensor Analysis, Tensor ODF estimation, Visualization and more.

MATLAB release MATLAB 6.0 (R12)
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Comments and Ratings (14)
21 Jun 2010 Jiachen Zhuo

Nice tools for higher order tensor estimation and plotting. Very good demo.

07 Sep 2010 Ben

Hi Angelos,

Do you have some tools for tensor filed smoothing?

Thanks,
Ben

10 Sep 2010 Angelos Barmpoutis

Ben, thanks for your feedback! Do you look for a isotropic or anisotropic tensor field smoothing? In the isotropic case, I have available on-line the Tensor Spline smoothing implmentation (IEEE TMI 2007). It is available through the JAVA version of fanDTasia.

Angelos

10 Sep 2010 Ben

Hi Angelos,

In my case, an isotropic one is ok. I'v only found a java applet DEMO on the url below.
http://www.cise.ufl.edu/~abarmpou/lab/fanDTasia/

Does "available" mean I can have a taste only? Or did I miss something? Or could you kindly give me an url about that JAVA version of fanDTasia?

Thanks,
Ben

11 Sep 2010 Angelos Barmpoutis

Hi Ben,

  Since Jan 2010 it has full functionalities! So "available" means that you can estimate as many tensor (DTI) fields as you want, as many 4th-order tensor fields you want, save them in your hard disk, perform fiber tracking, compute statistics in complex-structured ROIs and all that using parallel processing in super fast speed compared to the Matlab version! I am telling you, Super super fast speed! Try it!

Angelos

11 Sep 2010 Ben

Hi Angelos,

Let me make it more clear. I have a 2nd order tensor field. I wanna to smooth it using, e.g. your (an)isotropic Tensor Spline smoothing. Do you have a downloadable code for that in public domain, whatever Matlab or Java? Or an executable is also ok. I simply want to try it on my problem. Thanks.

Ben

12 Sep 2010 Angelos Barmpoutis

Hi Ben,

I am sorry, but the only smoothing implementation I have is Direct estimation of a smooth regularized DTI field from raw DW-MRI data. (Again it is in the java-applet version of fanDTasia). If you already have estimated the DTI data and you don't have the original DWMRI, I don't have a method for post-processing tensor field smoothing. Sorry about that, but most of my research has been focused on direct processing of DW-MRI rather than post-processing.

Angelos

12 Sep 2010 Ben

Thanks for your kind explanation.

Ben

09 May 2011 C. Andrés

Very good and useful toolbox. Thank you.

02 Jun 2011 Qiang

Hi Angelos,

Do you have code to do DKI processing.

Thanks

Qiang

26 Aug 2011 Siddharth Ray  
07 Feb 2012 Nad

Hi Angelos,

the DKI tool is a very useful tool. I am interested to know if you can provide me with a rician noise filter for 3D DWI MRI data?
Thanks a lot for your answer

13 Mar 2012 paulo

Hi Angelos,
how can one estimate a high order tensor from an ODF, instead of a signal?

Thanks,
Paulo

15 Mar 2012 Angelos Barmpoutis

Hello Paulo,

Are you asking how one can convert an ODF which is expressed usually in Spherical Harmonic Basis Functions into High-Order Cartesian Tensor Basis ODF, right? In general any spherical function parameterized in SH can be converted to CT parameterization using a linear system that maps uniquely the basis functions of the two parameterization. If the conversion is between equivalent orders of SH and CT basis the linear system is formed in a non-singular square matrix form, which can be easily inverted. I hope that this helps!

Angelos
   

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Updates
30 Apr 2010

Comments added to the files.

03 May 2010

High-Order Tensor plot function was added. Special thanks to the users from the University of Ulster and the University of Kent for their request.

10 Jun 2010

Cartesian Tensor ODF estimation added

17 Jun 2011

Demos for DKI estimation added.
FDT format open and write functions improved.

Tag Activity for this File
Tag Applied By Date/Time
diffusion tensor imaging Angelos Barmpoutis 18 Mar 2010 11:39:09
dti Angelos Barmpoutis 18 Mar 2010 11:39:09
diffusion weighted mri Angelos Barmpoutis 18 Mar 2010 11:39:09
dwmri Angelos Barmpoutis 18 Mar 2010 11:39:09
higher order tensors Angelos Barmpoutis 18 Mar 2010 11:39:09
orientation distribution function Angelos Barmpoutis 18 Mar 2010 11:39:09
odf Angelos Barmpoutis 18 Mar 2010 11:39:09
tensor field visualization Angelos Barmpoutis 18 Mar 2010 11:39:09
generate synthetic tensor fields Angelos Barmpoutis 18 Mar 2010 11:39:09
dwmri simulation Angelos Barmpoutis 18 Mar 2010 11:39:09
thank you very much Qiang 02 Jun 2011 11:22:43
diffusion kurtosis imaging Angelos Barmpoutis 17 Jun 2011 09:54:18
dki Angelos Barmpoutis 17 Jun 2011 09:54:18
thank you very much Massimiliano Izzo 25 Oct 2011 04:37:41
dki Farshid 31 Jan 2012 22:14:05
diffusion tensor imaging Farshid 31 Jan 2012 22:14:16
diffusion weighted mri Farshid 31 Jan 2012 22:14:20

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