Filtering whole-brain tractography using autotrack atlas

[Valerie Sydnor]

Hi, Frank! 

Thanks for your continued support through this google group. I'm reaching out to ask if there is functionality built in to DSI Studio for filtering whole-brain tractography post-hoc by autotrack atlas bundles. For example, if someone has already obtained whole-brain tractograph on thousands of participants but would like to convert the tractography into individual bundles constrained by a curated autotrack atlas, is there a way to do this without starting from the dsi_studio --action=atk --source=*.fz step? 

If not, would you suggest computing the hauasoff distance between streamlines in the whole-brain tractography and those in the autotrack bundles to assign streamlines to bundles (and filter out unassigned streamlines that exceed a chosen distance threshold)?

Thank you for your input and insight!

Valerie

[Frank Yeh]

First convert atk bundles as region NIFTI files.

You may use --action=atk --source=sub.fz --action=atk_bundle.tt.gz --output=region.nii.gz

After saving tracts as NIFTI files, use --action=ana --source=sub.fz --tract=whole_brain.tt.gz with --lim=region.nii.gz to filter tracts and specify output using --output=filtered.tt.gz

If the region is too small, may use --lim=region.nii.gz,dilation

Hope this helps,

Frank

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