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.li2mni_all(li_file, lianat_file, hanat_file, outdir, thr_factor=2, bins=300)[source]¶

Transform the Lithium (Li) data to the MNI space by using intermediate Hydrogene (H) data: l2mni, li2mnieyes, applytrf.

Parameters

li_file : str

path to the Li image.

lianat_file : str

path to the anat image acquired with the Li coil.

hanat_file : str

path of the anat image acquired with the H coil.

outdir : str

path to the destination folder.

thr_factor : float, default 2

multiply the mean of the second mode in the histogram to get a threshold to detect the eyes in the Lithium image.

bins : int, default 300

the number of bins in the histogram.