dmriprep.workflows.dwi.base module

Orchestrating the dMRI-preprocessing workflow.

dmriprep.workflows.dwi.base.init_dwi_preproc_wf(dwi_file, has_fieldmap=False)

Build a preprocessing workflow for one DWI run.

Workflow Graph
../_images/dmriprep-workflows-dwi-base-1.png

(Source code, png, svg, pdf)

Parameters

  • dwi_file (os.PathLike) – One diffusion MRI dataset to be processed.

  • has_fieldmap (bool) – Build the workflow with a path to register a fieldmap to the DWI.

Inputs

  • dwi_file – dwi NIfTI file

  • in_bvec – File path of the b-vectors

  • in_bval – File path of the b-values

  • fmap – File path of the fieldmap

  • fmap_ref – File path of the fieldmap reference

  • fmap_coeff – File path of the fieldmap coefficients

  • fmap_mask – File path of the fieldmap mask

  • fmap_id – The BIDS modality label of the fieldmap being used

Outputs

  • dwi_reference – A 3D \(b = 0\) reference, before susceptibility distortion correction.

  • dwi_mask – A 3D, binary mask of the dwi_reference above.

  • gradients_rasb – A RASb (RAS+ coordinates, scaled b-values, normalized b-vectors, BIDS-compatible) gradient table.

See also