bundle_uniformize
Uniformize streamlines’ endpoints according to a defined axis. Useful for tractometry or models creation.
Keywords : uniformize, Bundles, endpoints, tractometry
Inputs
Section titled “Inputs”Input 1
Section titled “Input 1”Format : tuple val(meta), path(bundles), path(centroids)
| Type | Description | Mandatory | Pattern | |
|---|---|---|---|---|
| meta | map | Groovy Map containing sample information e.g. [ id:'sample1', single_end:false ] | True | |
| bundles | file | Bundle or list of bundles to uniformize. | True | *.trk |
| centroids | file | Match endpoints of the streamlines to align it to a reference unique streamline (centroid). (optional) | False | *.trk |
Outputs
Section titled “Outputs”bundles
Section titled “bundles”Format : tuple val(meta), path(*_uniformized.trk)
| Type | Description | Mandatory | Pattern | |
|---|---|---|---|---|
| meta | map | Groovy Map containing sample information e.g. [ id:'sample1', single_end:false ] | True | |
| *_uniformized.trk | file | Bundle or list of bundles uniformized. | True | *.trk |
versions
Section titled “versions”Format : path(versions.yml)
| Type | Description | Mandatory | Pattern | |
|---|---|---|---|---|
| versions.yml | file | File containing software versions | True | versions.yml |
Arguments (see process.ext)
Section titled “Arguments (see process.ext)”| Type | Description | Default | Choices | |
|---|---|---|---|---|
| method | string | - “axis {x,y,z}” Match endpoints of the streamlines along this axis. SUGGESTION: Commissural = x, Association = y, Projection = z - “centroid”: Match endpoints of the streamlines to align it to a reference unique streamline (centroid). - “auto”: Match endpoints of the streamlines along an automatically determined axis. | auto | |
| swap | boolean | Swap head <-> tail convention. Can be useful when the reference is not in RAS. | False |
| Description | DOI | |
|---|---|---|
| scilpy | The Sherbrooke Connectivity Imaging Lab (SCIL) Python dMRI processing toolbox. |
Authors
Section titled “Authors”Last updated : 2025-10-30