Note

This page is a reference documentation. It only explains the function signature, and not how to use it. Please refer to the user guide for the big picture.

brainprep.interfaces.affine

brainprep.interfaces.affine(anatomical_file, template_file, output_dir, entities)

Affinely register a BIDS-compliant anatomical image to a template file using FSL’s flirt.

Parameters:

anatomical_fileFile

Path to the input image file.

template_file: File

Path to the image file defining the template space.

output_dirDirectory

Directory where the affine transformation will be saved.

entitiesdict

A dictionary of parsed BIDS entities including modality.

Returns:

commandlist[str]

Registration command-line.

outputstuple[File]

• aligned_anatomical_file : File - Aligned input image file.

• transform_file : File - The affine transformation file.