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
2 DWI Group Analysis
 2.1 Group analysis of FA/ADC maps
  2.1.1 Anatomical data Preparation
  2.1.2 Diffusion Data Preparation
  2.1.3 Creation of talairach FA or ADC maps – starting in native space
  2.1.4 Combining the maps
  2.1.5 ANCOVA Analysis of FA/ADC maps
 2.2 Group analysis of fiber tracts
  2.2.1 Tract probability maps
3 FAQ
 3.1 General
  3.1.1 Incorrect color coding FA maps
 3.2 Project Creation related
  3.2.1 I can’t get my data into BrainVoyager, or the values are all wrong
  3.2.2 The create project wizard does not work or crashes BrainVoyager
  3.2.3 Fine-Tuning alignment does not work properly
  3.2.4 Optional: Manual Co-registration of DMR with VMR
A Overview of DTI Procedures
B File types
 B.1 BrainVoyager Fiber Coordinate system
 B.2 Contents of the DDT file
C GRB file for the sample data set
 C.1 Format of grb files
D Recommended DW-MRI scan protocols