Package that provides tools for brain Lithium MRI 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.

limri.workflows.normalization.li2mninorm(li2mni_file, mask_file, outdir, norm='hist', ref_value=None, li2mniref_file=None)[source]¶

Normalize intensities using histogram matching.

Parameters

li2mni_file : str

path to the Li image.

mask_file : str

the brain mask image.

outdir : str

path to the destination folder.

norm : str, default ‘hist’

the normalization method, can be: ‘hist’, ‘minmax’, ‘norm’.

ref_value : int, default None

reference value of phantom intensity: needed for ‘norm’ normlaization.

li2mniref_file : str, default None

path to the reference Li image: needed for ‘hist’ and ‘minmax’ normalization.