Chapter 1
Single subject DW-MRI Analysis

 1.1 Data
 1.2 Creation of a Diffusion MR (DMR) Project
  1.2.1 DMR Properties
 1.3 Exploring a DMR project
  1.3.1 Creation of FA and Mean Diffusivity maps
 1.4 DMR-VMR coregistration
  1.4.1 VMR Preparation
  1.4.2 Source Files
  1.4.3 Source Options
  1.4.4 Initial Alignment
  1.4.5 Fine-Tuning Alignment
 1.5 Creation of a Volume Diffusion Weighted (VDW) data set
 1.6 Tensor, Diffusivity and FA calculation
  1.6.1 The gradient table
  1.6.2 Tensor, Mean Diffusivity and FA Computation
  1.6.3 Recommended: masking the DDT data
  1.6.4 Alternative Diffusion Measures
  1.6.5 Color coded maps
 1.7 Tensor visualization
 1.8 Fiber Tracking
  1.8.1 Interactive Fiber Tracking
  1.8.2 Fiber tracking from seed regions (VOI/ROI)
  1.8.3 Spatial Transformations of fibers
 1.9 Statistical Analysis
  1.9.1 VOI Statistics