BrkRaw DTI Extension

This hook provides Diffusion Tensor Imaging (DTI) support for BrkRaw.

Features

1. DTI Conversion:

   • Automatically exports .bval and .bvec (FSL format) files alongside the NIfTI image.
   • Correctly reorients gradient vectors (bvecs) from the logical frame to the image frame (RAS+).

2. DTI Viewer & QC:

   • Adds a DTI Tab to the BrkRaw Viewer.
   • Calculate DTI: Performs real-time Tensor fitting (OLS).
   • Visualization: Displays Fractional Anisotropy (FA), Mean Diffusivity (MD), and Directionally Encoded Color FA (DEC-FA) maps directly in the viewer.
   • DEC-FA QC: Allows immediate verification of gradient orientation (Red: L-R, Green: A-P, Blue: S-I).

Usage

Conversion

The hook is automatically selected for scans with diffusion directions (PVM_DwNDiffDir > 0).

brkraw convert /path/to/study -s 10

Viewer

Open the viewer and select a DTI scan. The "DTI" tab will appear in the control panel.

1. Click Calculate DTI.
2. Wait for the calculation to finish.
3. Use the dropdown to switch between FA, MD, DEC-FA, and b0 views.

Installation

pip install .
brkraw hook install dti