connectivity_visualize
display a connectivity matrix and adjust the desired visualization.
Keywords : numpy, connectivity, visualize, scilpy
Inputs
Section titled “Inputs”Input 1
Section titled “Input 1”Format : tuple val(meta), path(matrices), path(atlas_labels), path(labels_list)
| Type | Description | Mandatory | Pattern | |
|---|---|---|---|---|
| meta | map | Groovy Map containing sample information e.g. [ id:'sample1', single_end:false ] | True | |
| matrices | file | List of connectivity matrices. the set of matrices is concatenated into a single matrix, but can also contain a single matrix. | True | *.npy |
| atlas_labels | file | Lookup table with the label number as keys and the name as values | True | *.json |
| labels_list | file | List saved by the decomposition script, must contain labels rather than coordinates. | True | *.txt |
Outputs
Section titled “Outputs”figure
Section titled “figure”Format : tuple val(meta), path(*.png)
| Type | Description | Mandatory | Pattern | |
|---|---|---|---|---|
| meta | map | Groovy Map containing sample information e.g. [ id:'sample1', single_end:false ] | True | |
| *.png | file | Output filename for the connectivity matrix figure. | True | *.png |
versions
Section titled “versions”Format : path(versions.yml)
| Type | Description | Mandatory | Pattern | |
|---|---|---|---|---|
| versions.yml | file | File containing software versions | True | versions.yml |
| Description | DOI | |
|---|---|---|
| scilpy | The Sherbrooke Connectivity Imaging Lab (SCIL) Python dMRI processing toolbox. |
Authors
Section titled “Authors”Last updated : 2025-10-30