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