Package that provides tools for brain MRI Deep Learning pre-processing.

Note

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

brainprep.spatial.apply_affine(imfile, targetfile, regfile, affines, interp='spline', check_pkg_version=False)[source]¶

Apply affine transformations to an image.

Note

This function is based on FSL.

Parameters:

imfile : nibabel.Nifti1Image

the input image.

targetfile : nibabel.Nifti1Image

the target image.

regfile : str

the registered file.

affines : str or list of str

the affine transforms to be applied. If multiple transforms are specified, they are first composed.

interp : str, default ‘spline’

Choose the most appropriate interpolation method: ‘trilinear’, ‘nearestneighbour’, ‘sinc’, ‘spline’.

check_pkg_version : bool, default False

optionally check the package version using dpkg.

Returns:

regfile, trffile : str

the generated files.