Module: preproc/normalize

Normalize DWI using MRtrix3 (in WM)

Inputs

	Type	Description	Pattern
meta	map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
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	Homepage	DOI
scilpy	The Sherbrooke Connectivity Imaging Lab (SCIL) Python dMRI processing toolbox.	https://github.com/scilus/scilpy.git
MRtrix3	Toolbox for image processing, analysis and visualisation of dMRI.	https://mrtrix.readthedocs.io/en/latest/

Keywords

nifti
normalise
scilpy
MRtrix3

Authors

@scilus