Diff for "AnalyzingDiffusion" - MRC CBU Imaging Wiki
location: Diff for "AnalyzingDiffusion"
Differences between revisions 1 and 26 (spanning 25 versions)
Revision 1 as of 2007-04-30 10:18:13
Size: 229
Editor: devel03
Comment:
Revision 26 as of 2010-01-20 14:25:59
Size: 1324
Editor: MartaCorreia
Comment:
Deletions are marked like this. Additions are marked like this.
Line 1: Line 1:
= 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

= Sequences for Diffusion =
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 ).
Line 2: Line 12:

We are just getting going with diffusion analysis.
Line 7: Line 14:
See SiemensDiffusionImages for an explanation of the images that the Siemens Trio writes out from a diffusion run.
Line 8: Line 17:

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

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

Sequences for Diffusion

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 ).

Analyzing diffusion data

For the moment we are using FSL

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)