tractogram_densitymap
Compute density maps from tractograms
Keywords : Diffusion MRI, Tractogram, Density Map
Inputs
Section titled “Inputs”Input 1
Section titled “Input 1”Format : tuple val(meta), path(tractogram)
| Type | Description | Mandatory | Pattern | |
|---|---|---|---|---|
| meta | map | Groovy Map containing sample information e.g. [ id:'test', single_end:false ] | True | |
| tractogram | file | Tractogram file for density map computation | True | *.trk |
Outputs
Section titled “Outputs”density_map
Section titled “density_map”Format : tuple val(meta), path(*__*.nii.gz)
| Type | Description | Mandatory | Pattern | |
|---|---|---|---|---|
| meta | map | Groovy Map containing sample information e.g. [ id:'test', single_end:false ] | True | |
| __.nii.gz | file | Computed density map | True | *__*.nii.gz |
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 | |
|---|---|---|---|---|
| binary | integer | If set, will store the same value for all intersected voxels, creating a binary map. When set without a value, 1 is used (and dtype uint8). If a value is given, will be used as the stored value. | 1 | |
| endpoints_only | boolean | If set, will only use the endpoints. To get a head and a tail maps, see scil_bundle_compute_endpoints_map. | False |
| Description | DOI | |
|---|---|---|
| scilpy | The Sherbrooke Connectivity Imaging Lab (SCIL) Python dMRI processing toolbox. |
Authors
Section titled “Authors”Last updated : 2025-10-30