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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. TRACULA is tool for automatic reconstruction of a set of major white-matter pathways from diffusion-weighted images. It uses global probabilistic tractography with anatomical priors. Prior distributions on the neighboring anatomical structures of each pathway are derived from an atlas and combined with the FreeSurfer cortical parcellation and subcortical segmentation of the subject that is being analyzed to constrain the tractography solutions. This obviates the need for user interaction, "e.g.," to draw ROIs manually or set thresholds on path angle or length, and thus automates the application of tractography to large datasets.

TRACULA: TRActs Contrained by UnderLying Anatomy

TRACULA is tool for automatic reconstruction of a set of major white-matter pathways from diffusion-weighted images. It uses global probabilistic tractography with anatomical priors. Prior distributions on the neighboring anatomical structures of each pathway are derived from an atlas and combined with the FreeSurfer cortical parcellation and subcortical segmentation of the subject that is being analyzed to constrain the tractography solutions. This obviates the need for user interaction, "e.g.," to draw ROIs manually or set thresholds on path angle or length, and thus automates the application of tractography to large datasets.

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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:

Tracula (last edited 2023-07-17 03:04:26 by AnastasiaYendiki)