Difference between revisions of "2010 Winter Project Week HARDI CONNECTIVITY"

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*Day 1 - Compile and build HardiRsh([[2010_Winter_Project_Week_HARDI_RSH  | Bloy/Verma/Westin]]) with EXECT_OPTION (for ODF calculation) and SLICER_OPTION (for visualization in Slicer3) on a mac os platform
 
*Day 1 - Compile and build HardiRsh([[2010_Winter_Project_Week_HARDI_RSH  | Bloy/Verma/Westin]]) with EXECT_OPTION (for ODF calculation) and SLICER_OPTION (for visualization in Slicer3) on a mac os platform
  
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*Day 2 - Use the slicer module to load the Rsh volume and use the binary odf calculation for the primate data
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*Day 2 - Trying to build the slicer3 module and use it to load the reconstructed ODF volume and use the binary odf calculation for the primate data. (The data format is in nifti)  Meeting with [[ 2010_Winter_Project_Week_Tractography|Filtered tractography | James Malcolm]] for the possibility of using their fiber tracking technique on our data.
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*Day 3 - Working with [[2010_Winter_Project_Week_HARDI_RSH  | Luke]] for using nrrd files using python in Slicer3 for his implementation.
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Revision as of 19:46, 7 January 2010

Home < 2010 Winter Project Week HARDI CONNECTIVITY

Key Investigators

  • UNC-Chapel Hill: Yundi(Wendy) Shi, Deepika Mahalingam, Martin Styner


Objective

We are developing methods to study the connectivity of the developing brain in humans and macaques. The goals for this project week is the development of 1)a visualization strategy of ODF/HARDI information in Slicer (work with Bloy/Verma/Westin) and 2)a global fiber tractography method using HARDI/ODF information. Long-term goals of the project include application of the tractography results for deformable registration purposes and study of connectivity patterns in brain development.


Approach, Plan

  • Compare and select the most appropriate higher order diffusion representation for our human and macaque data from early brain development DWI studies
  • Visualization (development/implementation of modules for Slicer3), in collaboration with Bloy/Verma/Westin
  • Fiber tractography and connectivity information analysis

Progress

We have the matlab implementation of various QBall techniques and have applied those techniques to neonatal human data and primate data. We're also learning to use the CAMINO package and its use for our purpose. We just started the development for the global fiber tractography.

  • Day 1 - Compile and build HardiRsh( Bloy/Verma/Westin) with EXECT_OPTION (for ODF calculation) and SLICER_OPTION (for visualization in Slicer3) on a mac os platform
  • Day 2 - Trying to build the slicer3 module and use it to load the reconstructed ODF volume and use the binary odf calculation for the primate data. (The data format is in nifti) Meeting with Filtered tractography | James Malcolm for the possibility of using their fiber tracking technique on our data.
  • Day 3 - Working with Luke for using nrrd files using python in Slicer3 for his implementation.

References

  • P. A. Cook, Y. Bai, S. Nedjati-Gilani, K. K. Seunarine, M. G. Hall, G. J. Parker, D. C. Alexander, Camino: Open-Source Diffusion-MRI Reconstruction and Processing, 14th Scientific Meeting of the International Society for Magnetic Resonance in Medicine, Seattle, WA, USA, p. 2759, May 2006
  • Fillard et al. A Novel Global Tractography Algorithm Based on an Adaptive Spin Glass Model. Medical Image Computing and Computer-Assisted Intervention – MICCAI 2009 pp. 1-8
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