Module: bundle/recognize

Extract bundles from one (or more) tractograms

Inputs

	Type	Description	Pattern
meta	map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
tractograms	file	Tractogram file(s) for bundle extraction	*.trk
transform	file	Transform matrix bringing the atlas to native space	*.mat
config	file	Bundle atlas configuration file	*.json
directory	directory	Directory containing the reference atlas

Outputs

	Type	Description	Pattern
meta	map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
bundles	file	Segmented and cleaned bundles	*.trk
versions	file	File containing software versions	versions.yml

Tools

	Description	Homepage	DOI
Scilpy	The Sherbrooke Connectivity Imaging Lab (SCIL) Python dMRI processing toolbox.	https://github.com/scilus/scilpy.git

Keywords

Diffusion MRI
Tractogram
Segmentation
Bundles

Authors

@CHrlS98