normalize
Module: preproc/normalize
Normalize DWI using MRtrix3 (in WM)
Keywords : nifti, normalise, scilpy, MRtrix3
Inputs
| Type | Description | Mandatory | Pattern | |
|---|---|---|---|---|
| meta | map | Groovy Map containing sample information e.g. [ id:'test', single_end:false ] | true | |
| dwi | file | Nifti image file to normalize | *.{nii,nii.gz} | |
| mask | file | Nifti image file used to mask the input image | *.{nii,nii.gz} | |
| bval | file | Text file containing b-values | *.bval | |
| bvec | file | Text file containing b-vectors | *.bvec |
Outputs
| Type | Description | Pattern | |
|---|---|---|---|
| meta | map | Groovy Map containing sample information e.g. [ id:'test', single_end:false ] | |
| dwi | file | Normalized Nifti image file | *_normalized.{nii,nii.gz} |
| mask | file | Nifti image file mask | *_mask.{nii,nii.gz} |
| versions | file | File containing software versions | versions.yml |
Tools
| Description | DOI | |
|---|---|---|
| scilpy | The Sherbrooke Connectivity Imaging Lab (SCIL) Python dMRI processing toolbox. | |
| MRtrix3 | Toolbox for image processing, analysis and visualisation of dMRI. |
Authors
Last updated : 2025-07-15