frf

Module: reconst/frf

Compute a Fiber Response Function (FRF) from a DWI. Note that multiple types of FRF are available through the method argument. The single-shell single-tissue (ssst) FRF is performed by choosing the ssst method (task.ext.method). This is expected to output a single WM FRF. The multi-shell multi-tissue (msmt) FRF is performed by choosing the msmt method (task.ext.method). This is expected to output a WM FRF, a GM FRF and a CSF FRF, each containing values for every shells.

Inputs

	Type	Description	Mandatory	Pattern
meta	map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]	true
dwi	file	Nifti image of DWI.		*.{nii,nii.gz}
bval	file	B-values in FSL format.		*.bval
bvec	file	B-vectors in FSL format.		*.bvec
mask	file	Nifti b0 binary mask.		*.{nii,nii.gz}
wm_mask	file	Nifti binary WM mask.		*.{nii,nii.gz}
gm_mask	file	Nifti binary GM mask.		*.{nii,nii.gz}
csf_mask	file	Nifti binary CSF mask.		*.{nii,nii.gz}

Outputs

	Type	Description	Pattern
meta	map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
frf	file	Fiber Response Function (FRF), in the case of ssst_frf.	*.txt
wm_frf	file	WM Fiber Response Function (FRF), in the case of msmt_frf.	*.txt
gm_frf	file	GM Fiber Response Function (FRF), in the case of msmt_frf.	*.txt
csf_frf	file	CSF Fiber Response Function (FRF), in the case of msmt_frf.	*.txt
versions	file	File containing software versions	versions.yml

Tools

	Description	Homepage	DOI
DIPY	DIPY is the paragon 3D/4D+ imaging library in Python.	https://dipy.org
Scilpy	The Sherbrooke Connectivity Imaging Lab (SCIL) Python dMRI processing toolbox.	https://github.com/scilus/scilpy.git

Authors

@Manonedde, @karanphil