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| To use this tool, Please refer to the following tutorials on how to set up and run Tracula | The trac-all script is used to preprocess raw diffusion data (correcting for eddy current distortion and B0 field inhomogenities), register them to common spaces, model and reconstruct major white matter pathways (included in the atlas) without any manual intervention. trac-all may be used to execute all the above steps or parts of it depending on the dataset and user's preference for analyzing diffusion data. Alternatively, scripts exist to execute chunks of each processing pipeline, and individual commands may be run to execute a single processing step. To explore all the options in running trac-all please refer to the [[trac-all|trac-all wiki]]. In order to use this script to reconstruct tracts in Diffusion images, all the subjects in the dataset must have Freesurfer Recons. |
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| * [[Tracula|Setting Up a Configuration File to run Tracula]] | For step by step instruction on how to set up and run Tracula, Please refer to the following tutorials: |
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| * [[RunningTracula|Running Tracula]] | * [[FsTutorial/Tracula|Setting Up a Configuration File to run Tracula]] |
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| * [[TraculaOutputs|Outputs from Tracula]] | * [[FsTutorial/RunningTracula|Running Tracula]] |
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| * [[TraculaStatistics|Computing Tract Statistics]] | * [[FsTutorial/TraculaOutputs|Outputs from Tracula]] * [[FsTutorial/TraculaStatistics|Computing Tract Statistics]] |
TRACULA: TRActs Contrained by UnderLying Anatomy
Tracula is tool developed for automatically reconstructing a set of major white matter pathways in the brain from diffusion weighted images using probabilistic tractography. This method obviates the need for manual intervention for tract solutions and thus facilitates the application of tractography to large datasets.
The trac-all script is used to preprocess raw diffusion data (correcting for eddy current distortion and B0 field inhomogenities), register them to common spaces, model and reconstruct major white matter pathways (included in the atlas) without any manual intervention. trac-all may be used to execute all the above steps or parts of it depending on the dataset and user's preference for analyzing diffusion data. Alternatively, scripts exist to execute chunks of each processing pipeline, and individual commands may be run to execute a single processing step. To explore all the options in running trac-all please refer to the trac-all wiki. In order to use this script to reconstruct tracts in Diffusion images, all the subjects in the dataset must have Freesurfer Recons.
For step by step instruction on how to set up and run Tracula, Please refer to the following tutorials: