Brain Innovation

Convert TrackVis trk file to BrainVoyager fbr

This section is experimental: please check the fiber orientation carefully after the conversion!

In this page is described how to convert TrackVis (www.trackvis.org) trk files into BrainVoyager fiber files (*.fbr).

Prerequisites

1. The m-files needed for the conversion were tested with Matlab R2008a.
2. BVQXtools or NeuroElf, to download from www.neuroelf.net
3. TrackVis read/write functions to download from https://github.com/johncolby/along-tract-stats
4. Add BVQXtools and TrackVis read/write functions to your Matlab path
5. Download the following file and put the unzipped m-file into your Matlab path:
   trk_to_fbr.zip

Getting Started

1. Create DMR and VMR in BrainVoyager
2. Co-register DMR to VMR, create VDW and DDT and make sure the tensors display correctly
3. From the DMR, get the POS info as displayed below (in DMR Properties > Pos info), in this example -83.012
   
4. From the VMR get the POS info (in VMR Properties > Pos info), in this example -11.5663
   
5. Subtract the absolute DMR pos value from the absolute value of the VMR pos info, i.e. 83.012-11.5663 = 71.4457. Write this value down.
6. For the conversion, we need the offset from the TrackVis origin to the BrainVoyager origin. For the x and y offset, this is usually 0.5*X/Y dimension of the VMR, so 256/2=128 in most cases. The z offset is the value we calculated earlier, i.e. 71.4457. These 3 values are inputs to the conversion function.

In Matlab, do

>> cd /path-to-TrackVis fibers/

>> fbr = trk_to_fbr(128,128,71.4457); % this is trk_to_fbr(XOffset,YOffset,ZOffset)

The program will first ask for a trk file, and then to save the fbr file.

Example

TrackVis 0.5.1	BrainVoyager 2.3.0

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