Diff for "AnalyzingDiffusion" - MRC CBU Imaging Wiki
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= Principles of Diffusion MRI =
Here you can find a brief summary of the physical principles behind acquisition and analysis of diffusion-wieghted MRI images. [[attachment:Diffusion_and_MRI.pdf]]
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On the 4th of December there will be a meeting held at the Unit to discuss the new standard protocol for acquisition of diffusion weighted images. Here you can find some generic guidelines for chosing the voxel size/shape for you diffusion MRI experiment. [attachment:Diffusion_voxel_size Diffusion_voxel_size.doc] On the 4th of December 2009 there was a meeting of the [[MriPhysicsAndAnalysisForCognitiveNeuroscientists|MR physics & analysis for cognitive neuroscientists]] group on DTI, which included a discussion about the new CBU standard protocol for acquisition of diffusion weighted images.

Here you can find some generic guidelines for chosing the voxel size/shape for you diffusion MRI experiment. [[attachment:Diffuson_voxel_size.doc]]

The new standard CBU DTI sequence acquires isotopic voxels with dimensions 2x2x2mm3. The gaps between slices have also been removed, and instead we use interleaved slice acquisition to avoid crosstalk artefacts (more information here [[attachment:Desc_vs_Int.doc]] ).
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For the moment we are using FSL
A DTI analysis tutorial by Charlotte Rae is available here http://imaging.mrc-cbu.cam.ac.uk/imaging/DTItutorial

'''Older information '''
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There was a meeting of the [:MriPhysicsAndAnalysisForCognitiveNeuroscientists:MR physics & analysis for cognitive neuroscientists] group in November 2009 on DTI.

Principles of Diffusion MRI

Here you can find a brief summary of the physical principles behind acquisition and analysis of diffusion-wieghted MRI images. Diffusion_and_MRI.pdf

Sequences for Diffusion

On the 4th of December 2009 there was a meeting of the MR physics & analysis for cognitive neuroscientists group on DTI, which included a discussion about the new CBU standard protocol for acquisition of diffusion weighted images.

Here you can find some generic guidelines for chosing the voxel size/shape for you diffusion MRI experiment. Diffuson_voxel_size.doc

The new standard CBU DTI sequence acquires isotopic voxels with dimensions 2x2x2mm3. The gaps between slices have also been removed, and instead we use interleaved slice acquisition to avoid crosstalk artefacts (more information here Desc_vs_Int.doc ).

Analyzing diffusion data

A DTI analysis tutorial by Charlotte Rae is available here http://imaging.mrc-cbu.cam.ac.uk/imaging/DTItutorial

Older information

See SiemensDiffusionImages for an explanation of the images that the Siemens Trio writes out from a diffusion run.

Here are some notes on getting going with the fdt package for diffusion analysis in FSL: DiffusionFdtNotes

We had in informal meeting to share experience between the WBIC, FSL, and CSL: DiffusionMeeting10May2007

CbuImaging: AnalyzingDiffusion (last edited 2015-03-30 16:39:29 by OlafHauk)